Index: src/hg/archaeStuff/data/Genome-info-mods
===================================================================
RCS file: /projects/compbio/cvsroot/kent/src/hg/archaeStuff/data/Genome-info-mods,v
retrieving revision 1.79
retrieving revision 1.80
diff -b -B -U 1000000 -r1.79 -r1.80
--- src/hg/archaeStuff/data/Genome-info-mods	15 Sep 2009 23:12:15 -0000	1.79
+++ src/hg/archaeStuff/data/Genome-info-mods	20 Sep 2009 23:20:39 -0000	1.80
@@ -1,1750 +1,1750 @@
 ## Genome-info-mods - only add fields which you wish to over-ride in Genome-info-db (automatically 
 ##                    generated using "make-genome-info" perl script).
 #
 # Description of Fields for each genome entry:
 # 
 # Org_abr: first four letters of genus & species, plus strain identifier (if any)
 #  NOTE: Org_abr *must* occur prior to any of the fields given below to be associated 
 #        with the right genome!
 # Org_name: Species name (no length restriction -- taken from NCBI directory name; 
 #            should NOT be changed)
 # Menu_name: Species name preferred in pull-down menu (usually a shortenned version
 #             of Org_name -- i.e. without strain; should still be unique)
 # Domain:  Domain (Bacteria, Archaea, or Eukarya)
 # DB_name: name used for species database in mysql
 # Cent_DB: Production central database which must be set to same value as variable
 #              "central.db" in hg.conf in cgi-bin directory; will use a default value if not set explicitly
 # DB_src: Source of information for genome DB which determines the format of information
 #          input into genome browser;  defalt value "NCBI"; alt vals: "JGI", etc.; 
 #          will use default if not set explicitly
 # Tax_name: Full name of species (including strain) (normally taken from NCBI Genbank files)
 # Tax_ID:  NCBI's unique species identifier used in its taxonomy classification
 # Dom_ct:  Domain count -- priority order in which you want it displayed in the browser;
 #          can put an integer, or assign same priority as another organism (allows floating to stay
            in correct place for unpublished genomes) using notation '&Org_abbr' i.e. (Dom_ct: &Heli_pylo_J99)
 # Gen_ID:  Genome unique ID number used to access organim's genome page at NCBI
 # Pub_id: Pubmed identifier for publication describing genome sequence
 # Seq_acc: List of accession numbers for all refseq (NC*) genome files
 # Name_chg: Name mapping for each genome sequence file in pairs (i.e. NC2001 chr1 NC2002 chr2 ..etc)
 # Seq_size: Size of sequences, in same order as names in Seq_acc:
 # Gene_ct: Gene count list, separated by spaces, in order of seqs in Seq_acc field
 # Multiz: track abbreviation, followed by list of organisms (db names) to be aligned in multiz or blastz track
 # Public_multiz: track abbreviation, followed by list of organisms (db names) to be aligned in multiz or blastz track (used in public browser)
 # Phylo: phylogenetic tree string used to construct phylohmm track i.e. (org1,(org2,org3))
 # Rel_date: Release date for current sequence version of genome, read from NCBI's microbial genomes page
 # Sp_info: Optional sentences about species included in description.html front page (no length 
 #          restriction, but no newlines allowed)
 # Seq_src: Sequencing center that submitted the genome sequence (also from NCBI's microbial genomes page)
 # Web_seq: web/ftp address for fasta/genbank sequence files
 # Web_db:  NCBI web address for this organism's genome
 # Trna_opt: tRNAscan-SE options to use in auto-runs
 # Trna_abr: tRNAscan-SE output files prefix
 # Gen_seq: location of local FASTA genome sequence file
 # Prot_seq: location of local copy of protein sequences
 # Feat_seq: All features in genome file (including protein genes, ncRNA genes, intergenic 
 #           regions), separated into individual fasta seqs
 
 Org_abr:  Arch_fulg
 DB_name:  archFulg1
 Iso_pub: 17777850
 Rel_date: Dec 1997
 Sp_info:  <I>A. fulgidus</I> is a sulfur-metabolizing anaerobe that grows optimally around 83C. High-temperature sulfate reduction by Archaeoglobus species contributes to deep subsurface oil-well 'souring' by iron sulfide, which causes corrosion of iron and steel in oil-and gas-processing systems.
 
 Org_abr:  Aero_pern
 DB_name:  aerPer1
 Iso_pub: 8863437
 Rel_date: April 1999
 Sp_info: <I>A. pernix</I> is an aerobic hyperthermophilic crenarchaeon that grows optimally at 95C.
 
 
 # This is a draft genome, so most info needed to added manually
 Org_abr:  Ferr_acid_Fer1
 Menu_name: Ferroplasma acidarmanus
 Domain:   Archaea
 #Put incomplete genomes at the end of the list
 DB_name:  ferrAcid1
 Iso_pub:  10710303 
 Tax_name: Ferroplasma acidarmanus Fer1
 Gen_ID:   5000
 Name_chg: Contig90 Contig109 Contig112 Contig116 Contig102 Contig45 Contig114 Contig111 Contig115 Contig103 Contig106 Contig107 Contig117 Contig121 Contig125 Contig118 Contig123 Contig119 Contig124 Contig120 Contig126 Contig132 Contig134 Contig130 Contig133 Contig129 Contig128 Contig135 Contig140 Contig137 Contig139 Contig138 Contig136 Contig142 Contig141 Contig144 Contig148 Contig143 Contig145 Contig146 Contig147 Contig149 Contig150 Contig151 Contig155 Contig152 Contig156 Contig159 Contig157 Contig160 Contig158 Contig154 Contig161 Contig162 Contig163 Contig165 Contig164 Contig166 Contig167 Contig168 Contig169 
 Rel_date: June 2005 Draft
 Seq_src:  US DOE Joint Genome Institute
 Web_seq:  ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Ferroplasma_acidarmanus/
 Web_db:   http://www.ncbi.nlm.nih.gov/genomes/framik.cgi?db=Genome&gi=5000
 Sp_info:  <I>F. acidarmanus</I> is an acidophilic iron-oxidizing euryarchaeon that is native to metal-rich environments (including those rich in arsenic). It grows optimally at 42C and pH 1.2. The genome is still in draft form.
 Prot_seq: /projects/lowelab/db/genomes/Bacteria/Ferroplasma_acidarmanus_Fer1/Ferr_acid_Fer1-prot.fa
 Multiz:   Thermoplasmas picrTorr1 therVolc1 therAcid1 
 Phylo:    (((therVolc1,therAcid1),ferrAcid1),picrTorr1)
 
 Org_abr:  Halo_mari_ATCC_43049
 Menu_name: Haloarcula marismortui
 DB_name:  halMar1
 Iso_pub: 11536469 
 Rel_date: Nov. 2004
 Sp_info: <I>H. marismortui</I> is a halophilic archaeon found in the Dead Sea, where it optimally grows at around 4.5 molar salt.
 Multiz:   Halophiles natrPhar1 haloWals1 haloVolc1 natrMaga0 haloHalo1 haloSali1
 Phylo:    (((((haloHalo1,haloSali1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1))
 
 Org_abr:  Halo_sp
 DB_name:  haloHalo1
 Rel_date: Oct 2000
 Sp_info: <I>Halobacterium</I> is a halophilic aerobic euryarchaeon found under conditions of extremely high salinity, at an optimum of 4.3M salt.  It is a mesophile which grows optimally at 42C.  A well-developed genetic system is available for this species. 
 Multiz:   Halophiles haloSali1 natrMaga0 haloVolc1 natrPhar1 haloWals1 halMar1   
 Phylo:    (((((haloHalo1,haloSali1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1))
 SP_ID:    HALSA
 
 Org_abr:  Halo_sali_R1
 Menu_name: Halobacterium salinarum R1
 DB_name:  haloSali1
 Rel_date: Feb 2008
 Seq_src:  Max Planck Institute
 SP_ID:    HALSA
 Iso_pub: 
 Multiz:   Halophiles haloHalo1 natrMaga0 haloVolc1 natrPhar1 haloWals1 halMar1   
 Phylo:    (((((haloHalo1,haloSali1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1))
 
 Org_abr:  Halo_wals
 Rel_date: 07/25/06
 Seq_src: Max-Planck-Institute of Biochemistry and the University of Groningen
 Pub_id: 16820047
 DB_name: haloWals1
 #Iso_pub: 15560825
 SP_ID:    HALWD HALMA HALSP NATPD 
 Multiz:   Halophiles haloVolc1 halMar1 natrPhar1 natrMaga0 haloHalo1 haloSali1 
 Phylo:    (((((haloHalo1,haloSali1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1))
 
 Org_abr:  Halo_volc_DS2
 Org_name: Haloferax volcanii DS2
 Menu_name: Haloferax volcanii
 Domain:   Archaea
 DB_name:  haloVolc1
 Iso_pub: 1190944
 DB_src: TIGR
 #DB_src:   NCBI
 Tax_name: Haloferax volcanii DS2
 BLAT_IDs: 61000 61001
 Tax_ID:   309800: Archaea; Euryarchaeota; Halobacteria; Halobacteriales; Halobacteriaceae; Haloferax.
 TIGR_ID:  0
 Dom_ct: &Halo_sp
 Gen_ID:  0
 SP_ID:    HALVO HALSQ HALSA HALWD HALMA HALSP NATPD 
 Seq_acc: Hvo-genome TG_gha_455 TG_gha_452 TG_gha_453 TG_gha_454 TG_gha_450 
 Name_chg: chr pHV4 pHV3 pHV1 pHV2 
 Seq_size:  2847757 635786 437906 85092 6359
 Seq_GC:  66.64 61.67 65.56 55.5 56.06
 Gene_ct:  4209
 Gb_acc:   None
 Multiz:   Halophiles haloWals1 natrPhar1 natrMaga0 haloHalo1 haloSali1 halMar1  
 Phylo:    (((((haloHalo1,haloSali1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1))
 Pub_id:   
 Rel_date: April 2007
 Seq_src:  Institute for Genomic Research
 Sp_info: The genome is complete and being publicly released by Jonathan Eisen before journal publication while genome annotation is in progress.  <I>H. volcanii</I> is a chemoorganotroph requiring complex nutrient medium and 1.5-2.5 M NaCl for growth. Cultures will grow at 37C, but optimal growth is at 42C. 
 Web_seq:  
 Web_db:   
 Trna_opt: -o# -f# -m# -F# -HyA
 Trna_abr: Halo_volc-tRNAs
 Prot_seq: /projects/lowelab/db/genomes/Other-genomes/Haloferax_volcanii_DS2/Hvol-genome-prot.fa
 
 Org_abr:  Halo_utah_DSM_12940
 DB_name:  haloUtah1
 Name_chg: chr
 
 Org_abr:  Natr_phar
 DB_name:  natrPhar1
 Iso_pub: 
 Rel_date: Oct 2005
 Sp_info: <I>N. pharaonis</I>  grows at high salt and pH and has multiple systems for nitrogen assimilation. 
 Multiz:   Halophiles haloWals1 haloHalo1 natrMaga0 haloSali1 haloVolc1 halMar1  
 Phylo:    (((((haloHalo1,haloSali1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1))
 
 Org_abr:  Meth_jann
 DB_name:  methJann1
 Iso_pub: http://www.springerlink.com/content/u8774k126821777x/ 
 Name_chg: chr lg_extrachr sm_extrachr
 TIGR_ID:  57
 Rel_date: August 1996
 Sp_info: The organism's genus was formerly <I>Methanococcus</I>, but it has been reclassified as <I>Methanocaldococcus</I>.  <I>M. jannaschii</I> is a methanogen which grows optimally at 85C, and has the distinction of being the first archaeon and first hyperthermophile sequenced.   
 Multiz:  Methanococcus methFerv0 methVulc0 methInfe0 metMar1 methMari_C5_1 methMari_C7 methVann1 methAeol1 methTher1 methKand1
 Phylo: (methKand1,(methTher1,(((methJann1,methFerv0),methVulc0),methInfe0)),(methAeol1,(methVann1,(methMari_C7,(metMar1,methMari_C5_1)))))
 
 Org_abr:  Meth_mari_S2
 Menu_name: Methanococcus maripaludis S2
 DB_name:  metMar1
 Rel_date: May 2004
 Iso_pub: http://www.springerlink.com/content/nv3wj86641n40147/
 Sp_info: <I>M. maripaludis S2</I> is a mesophilic methanogen which was isolated from salt marsh sediment in South Carolina.  It grows on carbon dioxide and hydrogen, producing methane. 
 Multiz:  Methanococcus methMari_C5_1 methMari_C7 methVann1 methAeol1 methJann1 
 Phylo: (methKand1,(methTher1,(methJann1,(methAeol1,(methVann1,(methMari_C7,(methMari_C6,(metMar1,methMari_C5_1))))))))
 
 Org_abr:  Meth_mari_C5
 DB_name: methMari_C5_1
 Iso_pub:
 Multiz:  Methanococcus metMar1 methMari_C6 methMari_C7 methVann1 methAeol1 methJann1 
 Phylo: (methTher1,(methJann1,(methAeol1,(methVann1,(methMari_C7,(methMari_C6,(metMar1,methMari_C5_1)))))))
 
 Org_abr:  Meth_mari_C6
 DB_name: methMari_C6
 Iso_pub: 
 Multiz:  Methanococcus metMar1 methMari_C5_1 methMari_C7 methVann1 methAeol1 methJann1 
 Phylo: (methTher1,(methJann1,(methAeol1,(methVann1,(methMari_C7,(methMari_C6,(metMar1,methMari_C5_1)))))))
 Rel_date: Nov 2007
 
 Org_abr:  Meth_mari_C7
 DB_name:  methMari_C7
 Iso_pub: 
 Multiz:  Methanococcus metMar1 methMari_C5_1 methMari_C6 methVann1 methAeol1 methJann1 
 Phylo: (methTher1,(methJann1,(methAeol1,(methVann1,(methMari_C7,(methMari_C6,(metMar1,methMari_C5_1)))))))
 
 Org_abr:  Meth_aeol_Nankai-3
 Menu_name: Methanococcus aeolicus
 Iso_pub: 16825624 
 DB_name:  methAeol1
 SP_ID:    METAO METMP 
 Multiz:  Methanococcus metMar1 methMari_C5_1 methMari_C6 methMari_C7 methVann1 methJann1
 Phylo: (methTher1,(methJann1,(methAeol1,(methVann1,(methMari_C7,(methMari_C6,(metMar1,methMari_C5_1)))))))
 
 Org_abr:  Meth_vann_SB
 Menu_name: Methanococcus vannielii SB
 Iso_pub: 14888644 
 DB_name:  methVann1
 SP_ID:    METVA METMP 
 Multiz:  Methanococcus metMar1 methMari_C5_1 methMari_C6 methMari_C7 methAeol1 methJann1
 Phylo: (methTher1,(methJann1,(methAeol1,(methVann1,(methMari_C7,(methMari_C6,(metMar1,methMari_C5_1)))))))
 
 Org_abr: Meth_ferv_AG86
 Menu_name: Methanocaldococcus fervens
 DB_name: methFerv0
 Iso_pub: 10319479
 Tax_name: Methanocaldococcus fervens AG86
 SP_ID: METJA
 Rel_date: July 2009
 Name_chg: ctg00024 ctg00058 ctg00051 ctg00061 ctg00035 ctg00020 ctg00057 ctg00015 ctg00029 ctg00040 ctg00028 ctg00065 ctg00060 ctg00030 ctg00026 ctg00022 ctg00045 ctg00032 ctg00031 ctg00017 ctg00016 ctg00008 ctg00013 ctg00014 ctg00021 ctg00033 ctg00036 ctg00025 ctg00034 ctg00003 ctg00023 ctg00018 ctg00027 ctg00019 
 Seq_src: Joint Genome Institute
 Multiz:  Methanococcus methJann1 methVulc0 methInfe0 metMar1 methMari_C5_1 methMari_C7 methVann1 methAeol1 methTher1 methKand1
 Phylo: (methKand1,(methTher1,(((methJann1,methFerv0),methVulc0),methInfe0)),(methAeol1,(methVann1,(methMari_C7,(metMar1,methMari_C5_1)))))
 
 Org_abr: Meth_infe_ME
 Menu_name: Methanocaldococcus infernus
 DB_name: methInfe0
 Iso_pub: 9734046
 Tax_name: Methanocaldococcus infernus ME 
 SP_ID: METJA
 Rel_date: July 2009
 Name_chg: ctg00065 ctg00004 ctg00020 ctg00072 ctg00034 ctg00022 ctg00031 ctg00044 ctg00045 ctg00063 ctg00039 ctg00103 ctg00043 ctg00019 ctg00040 ctg00051 ctg00026 ctg00037 ctg00018 ctg00010 ctg00085 ctg00032 ctg00028 ctg00021 ctg00049 ctg00052 ctg00042 ctg00095 ctg00038 ctg00033 ctg00081 ctg00070 ctg00113 ctg00016 ctg00002 ctg00069 ctg00024 ctg00027 ctg00108 ctg00017 ctg00107 ctg00062 ctg00036 ctg00029 ctg00035 ctg00041 ctg00023 ctg00009 ctg00047 ctg00082 ctg00025 ctg00046 ctg00030 ctg00059 
 Seq_src: Joint Genome Institute
 Multiz:  Methanococcus methJann1 methFerv0 methVulc0 metMar1 methMari_C5_1 methMari_C7 methVann1 methAeol1 methTher1 methKand1
 Phylo: (methKand1,(methTher1,(((methJann1,methFerv0),methVulc0),methInfe0)),(methAeol1,(methVann1,(methMari_C7,(metMar1,methMari_C5_1)))))
 
 Org_abr: Meth_vulc_M7
 Org_name: Methanocaldococcus vulcanius M7
 Menu_name: Methanocaldococcus vulcanius
 Domain:  Archaea
 DB_name: methVulc0
 Iso_pub: 10319479
 Rel_date: July 2009
 DB_src:  ORNL
 Tax_name: Methanocaldococcus vulcanius M7
 BLAT_IDs: 61019 61020
 Tax_ID: 579137: Archaea; Euryarchaeota; Methanococci; Methanococcales; Methanocaldococcaceae; Methanocaldococcus.
 TIGR_ID: 0
 SP_ID: METJA
 Dom_ct: &Meth_infe_ME
 Gen_ID:  0
 Seq_acc: Meth-vulcM7-draft0609  Contig4 Contig6 Contig7 Contig2 Contig3 Contig5 
 Name_chg: Contig4 Contig6 Contig7 Contig2 Contig3 Contig5 
 Seq_size:  729534 713986 110152 104703 44189 38809
 Seq_GC:  31.48 31.26 31.57 32.04 30.53 31.97
 Seq_src: Joint Genome Institute
 Multiz:  Methanococcus methJann1 methFerv0 methInfe0 metMar1 methMari_C5_1 methMari_C7 methVann1 methAeol1 methTher1 methKand1
 Phylo: (methKand1,(methTher1,(((methJann1,methFerv0),methVulc0),methInfe0)),(methAeol1,(methVann1,(methMari_C7,(metMar1,methMari_C5_1)))))
 
 Org_abr:  Meth_acet
 DB_name:  metAce1
 Rel_date: April 2002
 Iso_pub: 16346552
 Sp_info: <I>M. acetivorans</I> is the largest known archaeal genome. Only Methanosarcina species possess all three known pathways for methanogenesis and are capable of utilizing no less than nine methanogenic substrates, including acetate. In contrast, all other orders of methanogens possess a single pathway for methanogenesis, and many utilize no more than two substrates.
 Multiz:   MethanosarcinaMethanomicrobiales  methMaze1 methBark1 methBurt2 methTherPT1 methHung1 methLabrZ_1 mculMari1
 Phylo:  (mculMari1,(methLabrZ_1,(methHung1,(methTherPT1,(methBurt2,(metAce1,(methMaze1,methBark1)))))))
 
 Org_abr:  Meth_bark_fusaro
 Menu_name: Methanosarcina barkeri
 DB_name:  methBark1
 Iso_pub: 889387
 Name_chg: plasmid1 chr
 Rel_date: Oct 2005
 Sp_info: <I>M. barkeri</I> is a mesophilic methanogen isolated from mud at a freshwater lake near Naples, Italy.  
 Multiz:   MethanosarcinaMethanomicrobiales methMaze1 metAce1 methBurt2 methTherPT1 methHung1 methLabrZ_1 mculMari1   
 Phylo:  (mculMari1,(methLabrZ_1,(methHung1,(methTherPT1,(methBurt2,(metAce1,(methMaze1,methBark1)))))))
 
 Org_abr:  Meth_maze
 DB_name:  methMaze1
 Iso_pub:
 Rel_date: July 2002
 TIGR_ID:  45681
 Multiz:   MethanosarcinaMethanomicrobiales methMaze1 metAce1 methBurt2 methTherPT1 methHung1 methLabrZ_1 mculMari1   
 Phylo:  (mculMari1,(methLabrZ_1,(methHung1,(methTherPT1,(methBurt2,(metAce1,(methMaze1,methBark1)))))))
 
 Org_abr:  Meth_maze
 DB_name:  methMaze1
 Rel_date: July 2002
 TIGR_ID:  45681
 Multiz:   MethanosarcinaMethanomicrobiales methBark1 metAce1 methBurt2 methTherPT1 methHung1 methLabrZ_1 mculMari1   
 Phylo:  (mculMari1,(methLabrZ_1,(methHung1,(methTherPT1,(methBurt2,(metAce1,(methMaze1,methBark1)))))))
 
 Org_abr:  Meth_burt_DSM_6242
 Org_name: Methanococcoides burtonii DSM 6242
 Menu_name: Methanococcoides burtonii
 Domain:   Archaea
 DB_name:  methBurt2
 Iso_pub:
 Rel_date: 4/10/2006
 Multiz:   MethanosarcinaMethanomicrobiales methBark1 methMaze1 metAce1 methTherPT1 methHung1 methLabrZ_1 mculMari1
 Phylo:  (mculMari1,(methLabrZ_1,(methHung1,(methTherPT1,(methBurt2,(metAce1,(methMaze1,methBark1)))))))
 
 Org_abr:  Meth_ther_PT
 Org_name: Methanosaeta thermophila PT
 Menu_name: Methanosaeta thermophila
 DB_name:  methTherPT1
 SP_ID:    METTP METAC METHJ METBU 
 Iso_pub:  1380291
 Rel_date: 10/28/06
 Seq_src: DOE/JGI
 Multiz:   Methanosarcinales methBark1 methMaze1 metAce1 methBurt2 methHung1
 Phylo:  (mculMari1,(methLabrZ_1,(methHung1,(methTherPT1,(methBurt2,(metAce1,(methMaze1,methBark1)))))))
 
 
 Org_abr:  Meth_hung_JF-1
 Org_name: Methanospirillum hungatei JF-1
 Menu_name: Methanospirillum hungatei
 DB_name:  methHung1
 SP_ID:    METLZ METHJ METMJ METAC METBU 
 Iso_pub:  http://www.bmb.psu.edu/faculty/ferry/lab/publications/publications/INT%20J%20SYST%20BACT%20v24%20p465.pdf
 Pub_id:   0
 Multiz:   Methanomicrobiales mculMari1 methLabrZ_1 methTherPT1 metAce1 methMaze1 methBark1 methBurt2 
 Phylo:  (mculMari1,(methLabrZ_1,(methHung1,(methTherPT1,(methBurt2,(metAce1,(methMaze1,methBark1)))))))
 
 Org_abr:  Meth_labr_Z
 DB_name:  methLabrZ_1
 Iso_pub:
 SP_ID:    METLZ METHJ METMJ METAC METBU 
 Multiz:   Methanomicrobiales mculMari1 methHung1 methTherPT1 metAce1 methMaze1 methBark1 methBurt2 
 Phylo:  (mculMari1,(methLabrZ_1,(methHung1,(methTherPT1,(methBurt2,(metAce1,(methMaze1,methBark1)))))))
 
 Org_abr:  Meth_mari_JR1
 DB_name:  mculMari1
 Iso_pub: http://www.springerlink.com/content/q37783t3001327u5/
 SP_ID:    METLZ METHJ METMJ METAC METBU 
 Multiz:   Methanomicrobiales methLabrZ_1 methHung1 methTherPT1 metAce1 methMaze1 methBark1 methBurt2 
 Phylo:  (mculMari1,(methLabrZ_1,(methHung1,(methTherPT1,(methBurt2,(metAce1,(methMaze1,methBark1)))))))
 
 Org_abr:  Meth_stad
 DB_name:  methStad1
 Iso_pub: 3994486 
 Multiz: Methanogens methSmit1 methTher1 metMar1 methMari_C5_1 methJann1
 Phylo: ((((methStad1,methSmit1),methTher1),(metMar1,methMari_C5_1)),methJann1)
 
 Org_abr:  Meth_ther
 DB_name:  methTher1
 Iso_pub: 4550816
 TIGR_ID:  87
 Rel_date: Aug 1997
 Sp_info: <I>M. thermoautotrophicus</I> is anaerobic and thermophilic. It grows at pH 7.2-7.6, and produces methane by reducing carbon dioxide. 
 Multiz: Methanogens methStad1 methSmit1 metMar1 methMari_C5_1 methJann1
 Phylo: ((((methStad1,methSmit1),methTher1),(metMar1,methMari_C5_1)),methJann1)
 
 Org_abr:  Meth_smit_ATCC_35061
 Menu_name: Methanobrevibacter smithii
 Iso_pub: 6798932
 DB_name:  methSmit1
 Multiz: Methanogens methStad1 methTher1 metMar1 methMari_C5_1 methJann1
 Phylo: ((((methStad1,methSmit1),methTher1),(metMar1,methMari_C5_1)),methJann1)
 SP_ID:    METSM METTH
 
 Org_abr:  Meth_kand
 DB_name:  methKand1
 Iso_pub: http://www.springerlink.com/content/m133vw1544m5k8u9/
 Rel_date: April 2002
 Phylo: (methKand1,((methStad1,methTher1),(methJann1,metMar1)))
 
 Org_abr:  Nano_equi
 DB_name:  nanEqu1
 Iso_pub: 11986665
 Rel_date: Oct. 2003
 Sp_info: <I>N. equitans</I> is a hyperthermophilic archaeon found as a parasite to Ignicoccus.
 
 Org_abr:  Pyro_aero
 DB_name:  pyrAer1
 Iso_pub: 7692819
 #Cent_DB:  centraldb_pbac
 Multiz:   PbacCmaTtxTpe pyroOgun0 pyroArse1 pyroCali1 pyroIsla1 therNeut1 therTena1 vulcDist0 caldMaqu1 therPend1
 Public_multiz:   PbacCmaTpe pyroArse1 pyroCali1 pyroIsla1 therNeut1 vulcDist0 caldMaqu1 therPend1
 Phylo:    ((((((((pyroArse1,pyroOgun0),pyrAer1),(pyroIsla1,therNeut1)),pyroCali1),therTena1),vulcDist0),caldMaqu1),therPend1)
 Rel_date: Dec 2001
 Sp_info: <I>P. aerophilum</I> is a hyperthermophilic crenarchaeon which was isolated from a boiling marine hole at Martoni Beach, Italy. It grows optimally at 100 C, either in the presence of low amounts of oxygen or anaerobically. It is remarkable for being able to utilize five different oxidants in respiration: oxygen, nitrate, arsenate, selenate, iron (III), and thiosulfate.  The genome was sequenced and annotated as the PhD project of Sorel Fitz-Gibbon, a student in Jeffrey Miller's lab.
 
 Org_abr:  Pyro_abys
 DB_name:  pyrAby1
 Iso_pub: http://www.springerlink.com/content/f516281626601h12/
 Rel_date: June 2001
 Sp_info: <I>P. abyssi</I> is a hyperthermophilic archaeon isolated from samples taken close to a hot spring situated 3500 meters deep in the south-east Pacific. The optimal growth conditions are reported as 103C at 200 atmospheres pressure.
 Pub_id:   12622808
 Multiz: Thermococcales pyrHor1 pyrFur2 therKoda1 therOnnu1 therBaro0
 Phylo: ((pyrFur2,(pyrHor1,pyrAby1)),((therKoda1,therOnnu1),therBaro0))
 
 Org_abr:  Pyro_furi
 DB_name:  pyrFur2
 Rel_date: Feb. 2002
 Iso_pub: http://www.springerlink.com/content/p50m447v02t436wp/
 Sp_info: <I>P. furiosus</I> was isolated from a shallow marine solfatara at Vulcano Island off southern Italy. The ceils are fermentative, sulfur-reducing, flagellated cocci with a maximal growth temperature of 103C and optimal growth at 100C. Generation times of 35 min and cell densities of more than 10^10 cells/ml have been reported. Because it is able to grow to high cell densities, and in the absence of elemental sulfur, it has become a favored source of highly thermostable enzymes (<I>partially excerpted from Robb et al. reference below</I>).
 Multiz: Thermococcales pyrHor1 pyrAby1 therKoda1 therOnnu1 therBaro0
 Phylo: ((pyrFur2,(pyrHor1,pyrAby1)),((therKoda1,therOnnu1),therBaro0))
 
 Org_abr:  Pyro_hori
 DB_name:  pyrHor1
 Iso_pub: 9672687
 Rel_date: April 1998
 Sp_info: <I>P. horikoshii</I> is a hyperthermophilic archaeon isolated from a hydrothermal vent at a depth of 1395 meters in the Okinawa Trough in the Pacific Ocean. It grows optimally at 98C.
 Multiz: Thermococcales pyrAby1 pyrFur2 therKoda1 therOnnu1 therBaro0
 Phylo: ((pyrFur2,(pyrHor1,pyrAby1)),((therKoda1,therOnnu1),therBaro0))
 
 Org_abr:  Ther_koda_KOD1
 Menu_name: Thermococcus kodakaraensis
 Iso_pub: 7811092
 DB_name:  therKoda1
 TIGR_ID:  50445
 JGI_ID:   638154520
 Rel_date: May 2004
 Sp_info:  <I>T. kodakaraensis</I> (also spelled <I>kodakarensis</I>) is a hyperthermophile that grows at 60-100C (optimally at 85C) and in a pH range of 5-9 (optimally at 6.5). It was isolated from a solfatara on the shore of Kodakara Island, Japan.  It can use elemental sulfur in respiration, or grow by fermentation on starch, maltose, or pyruvate.
 Pub_id: 15710748
 Multiz: Thermococcales therOnnu1 therBaro0 pyrFur2 pyrAby1 pyrHor1
 Phylo: ((pyrFur2,(pyrHor1,pyrAby1)),((therKoda1,therOnnu1),therBaro0))
 
 Org_abr:  Ther_baro_MP
 Menu_name: Thermococcus barophilus
 DB_name: therBaro0
 SP_ID: PYRKO
 Rel_date: July 2008
 Seq_src: J. Craig Venter Institute  
 Gene_ct:  NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 
 Seq_acc:  NZ_ABSF01000015 NZ_ABSF01000018 NZ_ABSF01000016 NZ_ABSF01000005 NZ_ABSF01000011 NZ_ABSF01000007 NZ_ABSF01000003 NZ_ABSF01000010 NZ_ABSF01000004 NZ_ABSF01000009 NZ_ABSF01000013 NZ_ABSF01000008 NZ_ABSF01000002 NZ_ABSF01000021 NZ_ABSF01000014 NZ_ABSF01000001 NZ_ABSF01000019 NZ_ABSF01000012 NZ_ABSF01000017 NZ_ABSF01000020 NZ_ABSF01000006 
 Name_chg: ctg_330 ctg_231 ctg_321 ctg_287 ctg_326 ctg_293 ctg_323 ctg_325 ctg_324 ctg_307 ctg_328 ctg_320 ctg_322 ctg_303 ctg_329 ctg_285 ctg_259 ctg_327 ctg_331 ctg_265 ctg_290 
 Multiz: Thermococcales therKoda1 therOnnu1 pyrFur2 pyrAby1 pyrHor1  
 Phylo: ((pyrFur2,(pyrHor1,pyrAby1)),((therKoda1,therOnnu1),therBaro0))
 
 Org_abr:  Ther_onnu_NA1
 Menu_name: Thermococcus onnurineus
 DB_name:  therOnnu1
 SP_ID: PYRKO
 Rel_date: Nov 2008
 Seq_src: Korea Ocean Research & Development Institute 
 Multiz: Thermococcales therKoda1 therBaro0 pyrFur2 pyrAby1 pyrHor1  
 Phylo: ((pyrFur2,(pyrHor1,pyrAby1)),((therKoda1,therOnnu1),therBaro0))
 
 Org_abr:  Ther_gamm_EJ3
 Menu_name: Thermococcus gammatolerans
 DB_name:  therGamm1
 Seq_acc:  NC_012804
 Name_chg: chr
 Pub_id:  0
 #Pub_id:   12807211
 Rel_date: June 2009
 SP_ID:    PYRKO
 Multiz: Thermococcales therKoda1 therOnnu1 therBaro0 therSibi1 pyrFur2 pyrHor1 pyrAby1
 Phylo: ((pyrFur2,(pyrHor1,pyrAby1)),((therGamm1,(therKoda1,therOnnu1)),(therBaro0,therSibi1)))
 
 Org_abr:  Ther_sibi_MM_739
 Menu_name: Thermococcus sibiricus
 DB_name:  therSibi1
 SP_ID:    PYRKO 
 Seq_acc:  NC_012883
 Name_chg: chr
 Pub_id:   11354459
 Rel_date: July 2009
 Multiz: Thermococcales therBaro0 therOnnu1 therKoda1 therGamm1 pyrFur2 pyrHor1 pyrAby1
 Phylo: ((pyrFur2,(pyrHor1,pyrAby1)),((therGamm1,(therKoda1,therOnnu1)),(therBaro0,therSibi1)))
 
 Org_abr:  Sulf_acid_DSM_639
 Menu_name: Sulfolobus acidocaldarius
 Iso_pub: 4559703
 DB_name:  sulfAcid1
 Rel_date: July 2005
 Sp_info: <I>S. acidocaldarius</I> is a thermophilic acidophile. It grows optimally at pH 2-3, and between 70-75C.
 Multiz: Sulfolobes sulSol1 sulfToko1 metaSedu
 Phylo: (metaSedu,(sulSol1,(sulfAcid1,sulfToko1)))
 
 Org_abr:  Sulf_solf
 DB_name:  sulSol1
 Iso_pub: http://www.springerlink.com/content/q425w03846155604/
 Rel_date: June 2001
 Sp_info: <I>S. solfataricus</i> is a thermophilic acidophile growing optimally at a pH 2-4 at 80C.  
 Multiz: Sulfolobes sulfAcid1 sulfToko1 metaSedu
 Phylo: (metaSedu,(sulSol1,(sulfAcid1,sulfToko1)))
 
 Org_abr:  Sulf_toko
 DB_name:  sulfToko1
 Iso_pub: 11878560
 Rel_date: August 2001
 Sp_info: <I>S. tokodaii</I> is a hyperthermophilic acidophile. It grows optimally at pH 2.5-3 at approximately 80C. <I>S. tokodaii</I> is an obligate aerobe and metabolizes sulfur.
 Multiz: Sulfolobes sulfAcid1 sulSol1 metaSedu
 Phylo: (metaSedu,(sulSol1,(sulfAcid1,sulfToko1)))
 
 Org_abr:  Sulf_isla_L_S_2_15
 Pub_id:   19435847
 Iso_pub:  12881573
 Rel_date: April 2009
 Name_chg: chr
 SP_ID: SULIL
 Multiz: Sulfolobes sulfIsla_Y_N_15_51 sulfIsla_Y_G_57_14 sulfIsla_M_16_27 sulfIsla_M_14_25 sulfIsla_M_16_4 sulSol1 sulfAcid1 sulfToko1 metaSedu
 Phylo: (metaSedu,((sulSol1,((sulfIsla_M_16_4,(sulfIsla_M_14_25,sulfIsla_M_16_27)),((sulfIsla_Y_G_57_14,sulfIsla_Y_N_15_51),sulfIsla_L_S_2_15))),(sulfAcid1,sulfToko1)))
 
 Org_abr:  Sulf_isla_M_14_25
 Pub_id:   19435847
 Iso_pub:  12881573
 Rel_date: April 2009
 Name_chg: chr
 SP_ID: SULIM
 Multiz: Sulfolobes sulfIsla_M_16_27 sulfIsla_M_16_4 sulfIsla_Y_G_57_14 sulfIsla_Y_N_15_51 sulfIsla_L_S_2_15 sulSol1 sulfAcid1 sulfToko1 metaSedu
 Phylo: (metaSedu,((sulSol1,((sulfIsla_M_16_4,(sulfIsla_M_14_25,sulfIsla_M_16_27)),((sulfIsla_Y_G_57_14,sulfIsla_Y_N_15_51),sulfIsla_L_S_2_15))),(sulfAcid1,sulfToko1)))
 
 Org_abr:  Sulf_isla_M_16_27
 Pub_id:   19435847
 Iso_pub:  12881573
 Rel_date: April 2009
 SP_ID: SULIA
 Multiz: Sulfolobes sulfIsla_M_14_25 sulfIsla_M_16_4 sulfIsla_Y_G_57_14 sulfIsla_Y_N_15_51 sulfIsla_L_S_2_15 sulSol1 sulfAcid1 sulfToko1 metaSedu
 Phylo: (metaSedu,((sulSol1,((sulfIsla_M_16_4,(sulfIsla_M_14_25,sulfIsla_M_16_27)),((sulfIsla_Y_G_57_14,sulfIsla_Y_N_15_51),sulfIsla_L_S_2_15))),(sulfAcid1,sulfToko1)))
 
 Org_abr:  Sulf_isla_M_16_4
 Pub_id:   19435847
 Iso_pub:  12881573
 Rel_date: May 2009
 SP_ID: SULIK
 Multiz: Sulfolobes sulfIsla_M_14_25 sulfIsla_M_16_27 sulfIsla_Y_G_57_14 sulfIsla_Y_N_15_51 sulfIsla_L_S_2_15 sulSol1 sulfAcid1 sulfToko1 metaSedu
 Phylo: (metaSedu,((sulSol1,((sulfIsla_M_16_4,(sulfIsla_M_14_25,sulfIsla_M_16_27)),((sulfIsla_Y_G_57_14,sulfIsla_Y_N_15_51),sulfIsla_L_S_2_15))),(sulfAcid1,sulfToko1)))
 
 Org_abr:  Sulf_isla_Y_G_57_14
 Pub_id:   19435847
 Iso_pub:  12881573
 Rel_date: April 2009
 SP_ID: SULIY
 Multiz: Sulfolobes sulfIsla_Y_N_15_51 sulfIsla_L_S_2_15 sulfIsla_M_16_27 sulfIsla_M_14_25 sulfIsla_M_16_4 sulSol1 sulfAcid1 sulfToko1 metaSedu
 Phylo: (metaSedu,((sulSol1,((sulfIsla_M_16_4,(sulfIsla_M_14_25,sulfIsla_M_16_27)),((sulfIsla_Y_G_57_14,sulfIsla_Y_N_15_51),sulfIsla_L_S_2_15))),(sulfAcid1,sulfToko1)))
 
 Org_abr:  Sulf_isla_Y_N_15_51
 Pub_id:   19435847
 Iso_pub:  12881573
 Rel_date: April 2009
 SP_ID: SULIN
 Multiz: Sulfolobes sulfIsla_Y_G_57_14 sulfIsla_L_S_2_15 sulfIsla_M_16_27 sulfIsla_M_14_25 sulfIsla_M_16_4 sulSol1 sulfAcid1 sulfToko1 metaSedu
 Phylo: (metaSedu,((sulSol1,((sulfIsla_M_16_4,(sulfIsla_M_14_25,sulfIsla_M_16_27)),((sulfIsla_Y_G_57_14,sulfIsla_Y_N_15_51),sulfIsla_L_S_2_15))),(sulfAcid1,sulfToko1)))
 
 Org_abr:  Meta_sedu_DSM_5348
 Org_name: Metallosphaera sedula DSM 5348
 Menu_name: Metallosphaera sedula
 Iso_pub:
 DB_name:  metaSedu
 SP_ID:    SULAC SULSO SULTO  
 Multiz: Sulfolobes sulfAcid1 sulfToko1 sulSol1
 Phylo: (metaSedu,(sulSol1,(sulfAcid1,sulfToko1)))
 
 Org_abr:  Ther_acid
 DB_name:  therAcid1
 Iso_pub: 5481857
 Rel_date: Sep 2000
 Sp_info: <I>T. acidophilum</I> is a thermophilic, acidophilic mycoplasma that grows optimally at 59C and pH 2.0. This species is a facultative aerobe.  The thermoplasamas are euryarchaea, distantly related to sulfolobes which are crenarchaea, yet both inhabit similar thermal acidic environments.
 Multiz:   Thermoplasmas therVolc1 picrTorr1 ferrAcid1 
 Phylo:    (((therVolc1,therAcid1),ferrAcid1),picrTorr1)
 
 Org_abr:  Ther_volc
 Rel_date: Dec 2004
 Iso_pub:
 Sp_info: <I>T. volcanium</I> is a thermophilic, acidophilic mycoplasma that grows optimally at 60C and pH 2.0. This species is a facultative aerobe.  The thermoplasamas are euryarchaea, distantly related to sulfolobes which are crenarchaea, yet both inhabit similar thermal acidic environments.
 DB_name:  therVolc1
 Multiz:   Thermoplasmas therAcid1 picrTorr1 ferrAcid1 
 Phylo:    (((therVolc1,therAcid1),ferrAcid1),picrTorr1)
 
 Org_abr:  Picr_torr_DSM_9790
 DB_name: picrTorr1
 Iso_pub: 7541113 
 Menu_name: Picrophilus torridus
 Rel_date: June 2004
 Sp_info: <I>P. torridus</I> is a thermoacidophile that can grow at temperatures around 60C. A membrane that is very impermiable to protons allows this euryarchaeon to live at pH as low as 0, while maintaining a pH of 4.6 internally.
 Multiz:   Thermoplasmas therVolc1 therAcid1 ferrAcid1
 Phylo:    (((therVolc1,therAcid1),ferrAcid1),picrTorr1)
 
 Org_abr:  Vibr_chol
 DB_name:  vibrChol1
 Name_chg: chrI chrII 
 Multiz:   Vibrio vibrChol_O395_1 vibrChol_MO10_1 vibrVuln_CMCP6_1 vibrVuln_YJ016_1 vibrPara1 vibrFisc_ES114_1 
 Phylo:    (((((vibrChol1,vibrChol_O395_1),vibrChol_MO10_1),(vibrVuln_CMCP6_1,vibrVuln_YJ016_1)),vibrPara1),vibrFisc_ES114_1)
 Menu_name: Vibrio cholerae O1 El Tor
 
 Org_abr:  Vibr_fisc_ES114
 DB_name:  vibrFisc_ES114_1
 Multiz:   Vibrio vibrChol1 vibrChol_O395_1 vibrChol_MO10_1 vibrVuln_CMCP6_1 vibrVuln_YJ016_1 vibrPara1 
 Phylo:    (((((vibrChol1,vibrChol_O395_1),vibrChol_MO10_1),(vibrVuln_CMCP6_1,vibrVuln_YJ016_1)),vibrPara1),vibrFisc_ES114_1)
 
 Org_abr:  Vibr_para
 DB_name:  vibrPara1
 Multiz:   Vibrio vibrChol1 vibrChol_O395_1 vibrChol_MO10_1 vibrVuln_CMCP6_1 vibrVuln_YJ016_1 vibrFisc_ES114_1 
 Phylo:    (((((vibrChol1,vibrChol_O395_1),vibrChol_MO10_1),(vibrVuln_CMCP6_1,vibrVuln_YJ016_1)),vibrPara1),vibrFisc_ES114_1)
 
 Org_abr:  Vibr_vuln_CMCP6
 DB_name:  vibrVuln_CMCP6_1
 Multiz:   Vibrio vibrChol1 vibrChol_O395_1 vibrChol_MO10_1 vibrVuln_YJ016_1 vibrPara1 vibrFisc_ES114_1 
 Phylo:    (((((vibrChol1,vibrChol_O395_1),vibrChol_MO10_1),(vibrVuln_CMCP6_1,vibrVuln_YJ016_1)),vibrPara1),vibrFisc_ES114_1)
 
 Org_abr:  Vibr_vuln_YJ016
 DB_name:  vibrVuln_YJ016_1
 Multiz:   Vibrio vibrChol1 vibrChol_O395_1 vibrChol_MO10_1 vibrVuln_CMCP6_1 vibrPara1 vibrFisc_ES114_1 
 Phylo:    (((((vibrChol1,vibrChol_O395_1),vibrChol_MO10_1),(vibrVuln_CMCP6_1,vibrVuln_YJ016_1)),vibrPara1),vibrFisc_ES114_1)
 
 Org_abr:  Vibr_chol_MO10
 Tax_name: Vibrio cholerae MO10
 DB_name: vibrChol_MO10_1
 Tax_ID:   345072: Bacteria; Proteobacteria; Gammaproteobacteria; Vibrionales; Vibrionaceae; Vibrio.
 Rel_date: 09/17/2005
 Seq_src:  TIGR
 Web_seq:  None
 Multiz:   Vibrio vibrChol1 vibrChol_O395_1 vibrVuln_CMCP6_1 vibrVuln_YJ016_1 vibrPara1 vibrFisc_ES114_1 
 Phylo:    (((((vibrChol1,vibrChol_O395_1),vibrChol_MO10_1),(vibrVuln_CMCP6_1,vibrVuln_YJ016_1)),vibrPara1),vibrFisc_ES114_1)
 
 Org_abr:  Vibr_chol_O395
 Tax_name: Vibrio cholerae O395
 DB_name:  vibrChol_O395_1
 Rel_date: 09/17/2005
 Multiz:   Vibrio vibrChol1 vibrChol_MO10_1 vibrVuln_CMCP6_1 vibrVuln_YJ016_1 vibrPara1 vibrFisc_ES114_1 
 Phylo:    (((((vibrChol1,vibrChol_O395_1),vibrChol_MO10_1),(vibrVuln_CMCP6_1,vibrVuln_YJ016_1)),vibrPara1),vibrFisc_ES114_1)
 
 Org_abr:  Geob_lovl_SZ
 Menu_name: Geobacter lovleyi
 DB_name:  geobLovl0
 Tax_name: Geobacter lovleyi SZ
 Rel_date: Dec 2006
 Seq_src:  US DOE Joint Genome Institute
 Multiz:   Geobacters geobMeta_GS15 geobSulf geobUran_RF4 geobSp_FRC32_0 geobBemi0 peloProp_DSM2379 peloCarb 
 Phylo:    ((((((geobMeta_GS15,geobSulf), (geobUran_RF4, geobSp_FRC32_0)),geobBemi0),peloProp_DSM2379),geobLovl0),peloCarb)
 
 Org_abr:  Geob_meta_GS-15
 Org_name: Geobacter metallireducens GS-15
 Menu_name: Geobacter metallireducens
 Seq_acc:  NC_007515 NC_007517
 Name_chg: plasmid chr 
 DB_name:  geobMeta_GS15
 Multiz:   Geobacters geobSulf geobUran_RF4 geobSp_FRC32_0 geobBemi0 geobLovl0 peloProp_DSM2379 peloCarb 
 Phylo:    ((((((geobMeta_GS15,geobSulf), (geobUran_RF4, geobSp_FRC32_0)),geobBemi0),peloProp_DSM2379),geobLovl0),peloCarb)
 
 Org_abr:  Geob_sulf
 DB_name:  geobSulf
 Multiz:   Geobacters geobMeta_GS15 geobUran_RF4 geobSp_FRC32_0 geobBemi0 geobLovl0 peloProp_DSM2379 peloCarb 
 Phylo:    ((((((geobMeta_GS15,geobSulf), (geobUran_RF4, geobSp_FRC32_0)),geobBemi0),peloProp_DSM2379),geobLovl0),peloCarb)
 
 Org_abr:  Geob_uran_Rf4
 Menu_name: Geobacter uraniumreducens
 DB_name:  geobUran_RF4
 Rel_date: 12/11/2007
 Multiz:   Geobacters geobSp_FRC32_0 geobMeta_GS15 geobSulf geobBemi0 geobLovl0 peloProp_DSM2379 peloCarb 
 Phylo:    ((((((geobMeta_GS15,geobSulf), (geobUran_RF4, geobSp_FRC32_0)),geobBemi0),peloProp_DSM2379),geobLovl0),peloCarb)
 
 Org_abr:  Geob_lovl_SZ
 Rel_date: Dec 2006
 Seq_src:  US DOE Joint Genome Institute
 Multiz:   Geobacters geobMeta_GS15 geobSulf geobUran_RF4 geobSp_FRC32_0 geobBemi0 peloProp_DSM2379 peloCarb 
 Phylo:    ((((((geobMeta_GS15,geobSulf), (geobUran_RF4, geobSp_FRC32_0)),geobBemi0),peloProp_DSM2379),geobLovl_SZ),peloCarb)
 
 Org_abr:  Geob_bemi
 DB_name:  geobBemi0
 Tax_name: Geobacter bemidjiensis Bem
 Rel_date: Apr 2007
 Seq_src:  US DOE Joint Genome Institute
 Multiz:   Geobacters geobMeta_GS15 geobSulf geobUran_RF4 geobSp_FRC32_0 geobLovl_SZ peloProp_DSM2379 peloCarb 
 Phylo:    ((((((geobMeta_GS15,geobSulf), (geobUran_RF4, geobSp_FRC32_0)),geobBemi0),peloProp_DSM2379),geobLovl_SZ),peloCarb)
 
 Org_abr:  Geob_sp_FRC32
 DB_name:  geobSp_FRC32_0
 Tax_name: Geobacter sp FRC32
 Rel_date: July 2007
 Seq_src:  US DOE Joint Genome Institute
 Seq_acc:  NZ_AASH01000164 NZ_AASH01000163 NZ_AASH01000162 NZ_AASH01000161 NZ_AASH01000160 NZ_AASH01000159 NZ_AASH01000158 NZ_AASH01000157 NZ_AASH01000156 NZ_AASH01000155 NZ_AASH01000154 NZ_AASH01000153 NZ_AASH01000152 NZ_AASH01000151 NZ_AASH01000150 NZ_AASH01000149 NZ_AASH01000148 NZ_AASH01000147 NZ_AASH01000146 NZ_AASH01000145 NZ_AASH01000144 NZ_AASH01000143 NZ_AASH01000142 NZ_AASH01000141 NZ_AASH01000140 NZ_AASH01000139 NZ_AASH01000138 NZ_AASH01000137 NZ_AASH01000136 NZ_AASH01000135 NZ_AASH01000134 NZ_AASH01000133 NZ_AASH01000132 NZ_AASH01000131 NZ_AASH01000130 NZ_AASH01000129 NZ_AASH01000128 NZ_AASH01000127 NZ_AASH01000126 NZ_AASH01000125 NZ_AASH01000124 NZ_AASH01000123 NZ_AASH01000122 NZ_AASH01000121 NZ_AASH01000120 NZ_AASH01000119 NZ_AASH01000118 NZ_AASH01000117 NZ_AASH01000116 NZ_AASH01000115 NZ_AASH01000114 NZ_AASH01000113 NZ_AASH01000112 NZ_AASH01000111 NZ_AASH01000110 NZ_AASH01000109 NZ_AASH01000108 NZ_AASH01000107 NZ_AASH01000106 NZ_AASH01000105 NZ_AASH01000104 NZ_AASH01000103 NZ_AASH01000102 NZ_AASH01000101 NZ_AASH01000100 NZ_AASH01000099 NZ_AASH01000098 NZ_AASH01000097 NZ_AASH01000096 NZ_AASH01000095 NZ_AASH01000094 NZ_AASH01000093 NZ_AASH01000092 NZ_AASH01000091 NZ_AASH01000090 NZ_AASH01000089 NZ_AASH01000088 NZ_AASH01000087 NZ_AASH01000086 NZ_AASH01000085 NZ_AASH01000084 NZ_AASH01000083 NZ_AASH01000082 NZ_AASH01000081 NZ_AASH01000080 NZ_AASH01000079 NZ_AASH01000078 NZ_AASH01000077 NZ_AASH01000076 NZ_AASH01000075 NZ_AASH01000074 NZ_AASH01000073 NZ_AASH01000072 NZ_AASH01000071 NZ_AASH01000070 NZ_AASH01000069 NZ_AASH01000068 NZ_AASH01000067 NZ_AASH01000066 NZ_AASH01000065 NZ_AASH01000064 NZ_AASH01000063 NZ_AASH01000062 NZ_AASH01000061 NZ_AASH01000060 NZ_AASH01000059 NZ_AASH01000058 NZ_AASH01000057 NZ_AASH01000056 NZ_AASH01000055 NZ_AASH01000054 NZ_AASH01000053 NZ_AASH01000052 NZ_AASH01000051 NZ_AASH01000050 NZ_AASH01000049 NZ_AASH01000048 NZ_AASH01000047 NZ_AASH01000046 NZ_AASH01000045 NZ_AASH01000044 NZ_AASH01000043 NZ_AASH01000042 NZ_AASH01000041 NZ_AASH01000040 NZ_AASH01000039 NZ_AASH01000038 NZ_AASH01000037 NZ_AASH01000036 NZ_AASH01000035 NZ_AASH01000034 NZ_AASH01000033 NZ_AASH01000032 NZ_AASH01000031 NZ_AASH01000030 NZ_AASH01000029 NZ_AASH01000028 NZ_AASH01000027 NZ_AASH01000026 NZ_AASH01000025 NZ_AASH01000024 NZ_AASH01000023 NZ_AASH01000022 NZ_AASH01000021 NZ_AASH01000020 NZ_AASH01000019 NZ_AASH01000018 NZ_AASH01000017 NZ_AASH01000016 NZ_AASH01000015 NZ_AASH01000014 NZ_AASH01000013 NZ_AASH01000012 NZ_AASH01000011 NZ_AASH01000010 NZ_AASH01000009 NZ_AASH01000008 NZ_AASH01000007 NZ_AASH01000006 NZ_AASH01000005 NZ_AASH01000004 NZ_AASH01000003 NZ_AASH01000002 NZ_AASH01000001 
 Name_chg: Ctg94 Ctg91 Ctg108 Ctg115 Ctg103 Ctg93 Ctg97 Ctg89 Ctg87 Ctg106 Ctg98 Ctg114 Ctg113 Ctg105 Ctg107 Ctg92 Ctg104 Ctg100 Ctg117 Ctg120 Ctg121 Ctg96 Ctg122 Ctg102 Ctg116 Ctg101 Ctg99 Ctg123 Ctg109 Ctg131 Ctg136 Ctg110 Ctg118 Ctg95 Ctg129 Ctg112 Ctg125 Ctg124 Ctg127 Ctg140 Ctg134 Ctg128 Ctg132 Ctg119 Ctg111 Ctg126 Ctg137 Ctg147 Ctg130 Ctg144 Ctg149 Ctg142 Ctg138 Ctg135 Ctg139 Ctg141 Ctg150 Ctg133 Ctg143 Ctg145 Ctg154 Ctg155 Ctg146 Ctg158 Ctg151 Ctg164 Ctg157 Ctg161 Ctg152 Ctg148 Ctg159 Ctg153 Ctg163 Ctg165 Ctg173 Ctg162 Ctg156 Ctg168 Ctg167 Ctg176 Ctg160 Ctg185 Ctg171 Ctg166 Ctg174 Ctg172 Ctg177 Ctg169 Ctg179 Ctg170 Ctg191 Ctg193 Ctg181 Ctg194 Ctg184 Ctg175 Ctg178 Ctg195 Ctg187 Ctg189 Ctg190 Ctg182 Ctg192 Ctg180 Ctg196 Ctg201 Ctg210 Ctg183 Ctg208 Ctg197 Ctg205 Ctg213 Ctg200 Ctg199 Ctg198 Ctg214 Ctg216 Ctg207 Ctg188 Ctg186 Ctg212 Ctg206 Ctg209 Ctg218 Ctg219 Ctg215 Ctg203 Ctg211 Ctg202 Ctg204 Ctg220 Ctg217 Ctg223 Ctg221 Ctg232 Ctg226 Ctg222 Ctg224 Ctg231 Ctg235 Ctg233 Ctg228 Ctg225 Ctg227 Ctg229 Ctg236 Ctg230 Ctg234 Ctg239 Ctg240 Ctg238 Ctg237 Ctg243 Ctg241 Ctg244 Ctg246 Ctg247 Ctg242 Ctg245 Ctg248 Ctg250 Ctg249 Ctg251 Ctg252 
 Phylo:    ((((((geobMeta_GS15,geobSulf), (geobUran_RF4, geobSp_FRC32_0)),geobBemi0),peloProp_DSM2379),geobLovl_SZ),peloCarb)
 Multiz:   Geobacters geobUran_RF4 geobMeta_GS15 geobSulf geobBemi0 geobLovl_SZ peloProp_DSM2379 peloCarb
 Phylo:    ((((((geobMeta_GS15,geobSulf), (geobUran_RF4, geobSp_FRC32_0)),geobBemi0),peloProp_DSM2379),geobLovl_SZ),peloCarb)
 
 Org_abr:  Pelo_carb
 Multiz:   Geobacters geobUran_RF4 geobMeta_GS15 geobSulf geobSp_FRC32_0 geobBemi0 geobLovl_SZ peloProp_DSM2379
 Phylo:    ((((((geobMeta_GS15,geobSulf), (geobUran_RF4, geobSp_FRC32_0)),geobBemi0),peloProp_DSM2379),geobLovl_SZ),peloCarb)
 
 Org_abr:  Pelo_prop_DSM_2379
 Menu_name: Pelobacter propionicus
 DB_name:  peloProp_DSM2379
 Multiz:   Geobacters geobMeta_GS15 geobSulf geobUran_RF4 geobSp_FRC32_0 geobBemi0 geobLovl_SZ peloCarb 
 Phylo:    ((((((geobMeta_GS15,geobSulf), (geobUran_RF4, geobSp_FRC32_0)),geobBemi0),peloProp_DSM2379),geobLovl_SZ),peloCarb)
 
 Org_abr:  Croc_wats_WH8501
 DB_name:  crocWats_WH8501_0
 Tax_name: Crocosphaera watsonii WH 8501
 Rel_date: Mar 2004
 Seq_src:  US DOE Joint Genome Institute
 
 Org_abr:  Yers_pseu_IP32953
 TIGR_ID:  50404
 
 Org_abr:  Azor_caul_ORS_571
 DB_name: azorCaul2
 
 Org_abr:  Pyro_isla_DSM_4184
 Menu_name: Pyrobaculum islandicum
 DB_name:  pyroIsla1
 Iso_pub: http://www.springerlink.com/content/j7016363n25h5221/
 SP_ID:    PYRAE 
 Multiz:   PbacTtxCmaTpe therNeut1 pyrAer1 pyroOgun0 pyroArse1 pyroCali1 therTena1 vulcDist0 caldMaqu1 therPend1
 Public_multiz:   PbacCmaTpe therNeut1 pyrAer1 pyroArse1 pyroCali1 vulcDist0 caldMaqu1 therPend1
 Phylo:    ((((((((pyroArse1,pyroOgun0),pyrAer1),(pyroIsla1,therNeut1)),pyroCali1),therTena1),vulcDist0),caldMaqu1),therPend1)
 Pub_id:   
 Rel_date: 12/20/06
 Seq_src:  DOE Joint Genome Institute/UCSC
 Trna_opt: -o# -f# -m# -F# -HyA
 Trna_abr: Pyro_isla-tRNAs
 Prot_seq: /projects/lowelab/db/genomes/Other-genomes/Pyrobaculum_islandicum/Pis-genome-prot.fa
 
 Org_abr:  Pyro_cali_JCM_11548
 Org_name: Pyrobaculum calidifontis JCM 11548
 Menu_name: Pyrobaculum calidifontis
 Domain:   Archaea
 Iso_pub: 15803649
 DB_name:  pyroCali1
 Tax_name: Pyrobaculum calidifontis JCM 11548
 TIGR_ID:  0
 SP_ID:    PYRAE 
 Multiz:   PbacTtxCmaTpe pyrAer1 pyroOgun0 pyroArse1 pyroIsla1 therNeut1 therTena1 vulcDist0 caldMaqu1 therPend1
 Public_multiz:   PbacCmaTpe pyrAer1 pyroArse1 pyroIsla1 therNeut1 vulcDist0 caldMaqu1 therPend1
 Phylo:    ((((((((pyroArse1,pyroOgun0),pyrAer1),(pyroIsla1,therNeut1)),pyroCali1),therTena1),vulcDist0),caldMaqu1),therPend1)
 Rel_date: 02/27/07
 Seq_src:  DOE Joint Genome Institute/UCSC
 Trna_abr: Pyro_cali-tRNA
 
 Org_abr:  Pyro_arse_DSM_13514
 Menu_name: Pyrobaculum arsenaticum
 DB_name:  pyroArse1
 Iso_pub: 11108007
 Multiz:   PbacTtxCmaTpe pyroOgun0 pyrAer1 pyroIsla1 therNeut1 pyroCali1 therTena1 vulcDist0 caldMaqu1 therPend1
 Public_multiz:   PbacCmaTpe pyrAer1 pyroIsla1 therNeut1 pyroCali1 vulcDist0 caldMaqu1 therPend1
 Phylo:    ((((((((pyroArse1,pyroOgun0),pyrAer1),(pyroIsla1,therNeut1)),pyroCali1),therTena1),vulcDist0),caldMaqu1),therPend1)
 Rel_date: April 2006
 Seq_src:  DOE Joint Genome Institute/UCSC
 Trna_abr: Pyro_arse-tRNAs
 SP_ID:    PYRAE 
 
 Org_abr:  Ther_neut_V24Sta
 Menu_name: Thermoproteus neutrophilus
 DB_name:  therNeut1
 SP_ID:    PYRAE 
 Gen_ID:   15645
 Pub_id:   0
 Iso_pub:
 Rel_date: Mar 2008
 Seq_src:  DOE Joint Genome Institute / UCSC
 Trna_abr: Ther_neut-tRNAs
 Multiz:   PbacTtxCmaTpe pyroIsla1 pyrAer1 pyroOgun0 pyroArse1 pyroCali1 therTena1 vulcDist0 caldMaqu1 therPend1
 Public_multiz:   PbacCmaTpe pyroIsla1 pyrAer1 pyroArse1 pyroCali1 vulcDist0 caldMaqu1 therPend1
 Phylo:    ((((((((pyroArse1,pyroOgun0),pyrAer1),(pyroIsla1,therNeut1)),pyroCali1),therTena1),vulcDist0),caldMaqu1),therPend1)
 
 Org_abr:  Pyro_ogun
 Org_name:  Pyrobaculum oguniense
 Menu_name: Pyrobaculum oguniense
 Domain: Archaea
 DB_name:  pyroOgun0
 DB_src:   LOWELAB
 Tax_name: Pyrobaculum oguniense
 Tax_ID:   99007: Archaea; Crenarchaeota; Thermoprotei; Thermoproteales; Thermoproteaceae; Pyrobaculum. 
 Iso_pub: 11321074
 BLAT_IDs: 61015 61016
 TIGR_ID:  0
 JGI_ID:   0
 SP_ID:    PYRAE 
 String_ID: 0
 Dom_ct: &Pyro_isla_DSM_4184
 Gen_ID:  0
 Gb_acc:   None
 Seq_acc: Pog-genome-v0  chr plasmid 
 Name_chg: chr ece 
 Seq_size:  2434148 16919
 Seq_GC:  55.08 50.45
 Gene_ct: 3206
 Multiz:   PbacTtxCmaTpe pyroArse1 pyrAer1 pyroIsla1 therNeut1 pyroCali1 therTena1 vulcDist0 caldMaqu1 therPend1
 Public_multiz:   PbacCmaTpe pyroArse1 pyrAer1 pyroIsla1 therNeut1 pyroCali1 vulcDist0 caldMaqu1 therPend1
 Phylo:    ((((((((pyroArse1,pyroOgun0),pyrAer1),(pyroIsla1,therNeut1)),pyroCali1),therTena1),vulcDist0),caldMaqu1),therPend1)
 Rel_date: 07/10/09
 Seq_src:  UC Santa Cruz
 Trna_abr: Pyro_ogun-tRNAs
 
 
 Org_abr:  Cald_maqu_IC-167
 Menu_name: Caldivirga maquilingensis
 Domain:   Archaea
 Iso_pub: 10425774
 DB_name:  caldMaqu1
 SP_ID:    PYRAE 
 Multiz:   PbacTtxCmaTpe pyrAer1 pyroOgun0 pyroArse1 pyroIsla1 therNeut1 pyroCali1 therTena1 vulcDist0
 Public_multiz:   PbacCmaTpe pyrAer1 pyroArse1 pyroIsla1 therNeut1 pyroCali1 vulcDist0
 Phylo:    ((((((((pyroArse1,pyroOgun0),pyrAer1),(pyroIsla1,therNeut1)),pyroCali1),therTena1),vulcDist0),caldMaqu1),therPend1)
 Rel_date: Nov 2007
 Seq_src:  DOE Joint Genome Institute/UCSC
 Trna_abr: Cald_maqu-tRNAs
 
 Org_abr:  Ther_pend_Hrk_5
 DB_name:  therPend1
 Menu_name: Thermofilum pendens
 Iso_pub:  Zillig, W., A. Gierl, G. Schreiber, S. Wunderl, D. Janekovic, K. O. Stetter, and H. P. Klenk. (1983) "The archaebacterium <I>Thermofilum pendens</I> represents a novel genus of the thermophilic, anaerobic sulfur respiring Thermoproteales." <I>Syst. Appl. Microbiol.</I> <B>4</B>:79-87. 
 Seq_acc:  NC_008696 NC_008698
 Name_chg: pTPEN01 chr 
 Multiz:   PbacTtxCmaTpe caldMaqu1 vulcDist0 pyroCali1 pyrAer1 pyroArse1 pyroIsla1 therNeut1 
 Public_multiz:   PbacCmaTpe caldMaqu1 vulcDist0 pyroCali1 pyrAer1 pyroOgun0 pyroArse1 pyroIsla1 therNeut1 
 Phylo:    ((((((((pyroArse1,pyroOgun0),pyrAer1),(pyroIsla1,therNeut1)),pyroCali1),therTena1),vulcDist0),caldMaqu1),therPend1)
 Rel_date: 03/01/06
 Seq_src:  DOE Joint Genome Institute
 Trna_abr: Ther_pend-tRNAs
 
 Org_abr:  Cena_symb
 Org_name: Cenarchaeum symbiosum
 Menu_name: Cenarchaeum symbiosum
 Iso_pub: 8692799
 Domain:   Archaea
 DB_name:  cenaSymb1
 DB_src: JGI
 Tax_name: Cenarchaeum symbiosum
 Tax_ID:   46770: Archaea; Crenarchaeota; Thermoprotei; Cenarchaeales; Cenarchaeaceae; Cenarchaeum.
 TIGR_ID:  0
 Gen_ID:  0
 Seq_acc: CENSYa 
 Name_chg: chr 
 Seq_size:  2023713
 Seq_GC:  57.46
 Gene_ct:  2011 
 Pub_id:  16533068
 Rel_date: 03/01/06
 Seq_src:  MIT Sequencing Center
 Web_seq:  
 Web_db:   
 Prot_seq: /projects/lowelab/db/genomes/JGI-genomes/Cenarchaeum_symbiosum/Cysm-genome-prot.fa
 Multiz: MarineCrens nitrMari1
 Phylo: (nitrMari1, cenaSymb1)
 
 Org_abr:  Nitr_mari_SCM1
 Org_name: Nitrosopumilus maritimus SCM1
 Menu_name: Nitrosopumilus maritimus
 Iso_pub: 16177789
 DB_name:  nitrMari1
 Tax_name: Nitrosopumilus maritimus SCM1
 Tax_ID:   436308: Archaea; Crenarchaeota; Thermoprotei; marine_archaeal_group_1; Nitrosopumilales; Nitrosopumilaceae; Nitrosopumilus.
 SP_ID:    CENSY  
 Rel_date: Nov 2007
 Seq_src:  Joint Genome Institute / Univ. of Washington
 Web_seq:  
 Web_db:   
 Trna_opt: -o# -f# -m# -F# -HyA
 Trna_abr: Nitr_mari-tRNAs
 Multiz: MarineCrens cenaSymb1
 Phylo: (cenaSymb1,nitrMari1)
 
 Org_abr:  Ther_tena
 Org_name: Thermoproteus tenax
 Menu_name: Thermoproteus tenax
 Iso_pub:
 Domain:   Archaea
 DB_name:  therTena1
 #Cent_DB:  centraldb_pbac
 DB_src: ORNL
 Tax_name: Thermoproteus tenax
 BLAT_IDs: 61004 61005
 Tax_ID:   2271: Archaea; Crenarchaeota; Thermoprotei; Thermoproteales; Thermoproteaceae; Thermoproteus.
 TIGR_ID:  0
 Dom_ct: &Ther_neut_V24Sta
 Gen_ID:  0
 Seq_acc: Ttenax-genome chr
 Name_chg: chr
 Gb_acc:   None
 Seq_size:  1841542
 Seq_GC:  55.13
 Gene_ct:  1800 
 Multiz:   PbacTtxCmaTpe pyroIsla1 therNeut1 pyroCali1 pyrAer1 pyroArse1 caldMaqu1 therPend1
 Public_multiz:   PbacCmaTpe pyroIsla1 therNeut1 pyroCali1 pyrAer1 pyroArse1 caldMaqu1 therPend1
 Phylo:    (((((((pyroArse1,pyrAer1),(pyroIsla1,therNeut1)),pyroCali1),therTena1),vulcDist0),caldMaqu1),therPend1)
 Pub_id:   
 Rel_date: Private
 Seq_src:  University Duisburg-Essen
 Trna_opt: -o# -f# -m# -F# -HyA
 Trna_abr: Ther_tena-tRNAs
 
 Org_abr:  Vulc_dist
 Org_name: Vulcanisaeta distributa
 Menu_name: Vulcanisaeta distributa
 Iso_pub: 12148613
 Domain:   Archaea
 DB_name:  vulcDist0
 DB_src: ORNL
 Tax_name: Vulcanisaeta distributa IC-017
 BLAT_IDs: 61006 61007
 Tax_ID:   572478: Archaea; Crenarchaeota; Thermoprotei; Thermoproteales; Thermoproteaceae; Vulcanisaeta.
 TIGR_ID:  0
 Dom_ct: &Ther_tena
 Gen_ID:  0
 Seq_acc: Vdistributa-genome  Contig00003 Contig00014 Contig00022 Contig00023 Contig00024 Contig00025 Contig00026 Contig00027 Contig00028 Contig00029 Contig00030 Contig00031 Contig00032 Contig00033 Contig00034 Contig00035 Contig00036 
 Name_chg: Contig00003 Contig00014 Contig00022 Contig00023 Contig00024 Contig00025 Contig00026 Contig00027 Contig00028 Contig00029 Contig00030 Contig00031 Contig00032 Contig00033 Contig00034 Contig00035 Contig00036
 Gb_acc:   None
 Seq_size:  534 515 264733 65541 174207 139013 122896 196801 158953 39744 100608 15899 178459 562434 78852 109394 157801
 Seq_GC:  42.7 42.33 44.63 44.66 45.67 44.93 46.6 47.02 46.38 50.39 50.63 48.37 43.6 44.3 45.13 44.15 45.72
 Gene_ct:  2634 
 Multiz:   PbacTtxVdiCmaTpe pyroIsla1 therNeut1 pyroCali1 pyrAer1 pyroOgun0 pyroArse1 caldMaqu1 therPend1
 Public_multiz:   PbacVdiCmaTpe pyroIsla1 therNeut1 pyroCali1 pyrAer1 pyroArse1 vulcDist0 caldMaqu1 therPend1
 Phylo:    ((((((((pyroArse1,pyroOgun0),pyrAer1),(pyroIsla1,therNeut1)),pyroCali1),therTena1),vulcDist0),caldMaqu1),therPend1)
 Pub_id:   
 Rel_date: 03/2009
 Seq_src:  JGI
 Trna_opt: -o# -f# -m# -F# -HyA
 Trna_abr: Vulc_dist-tRNAs
 
 Org_abr: Natr_maga
 Org_name: Natrialba magadii
 Menu_name: Natrialba magadii
 Iso_pub: 9226918 
 Domain:   Archaea
 DB_name:  natrMaga0
 DB_src: ORNL
 Tax_name: Natrialba magadii ATCC 43099
 BLAT_IDs: 61008 61009
 Tax_ID:   547559: Archaea; Euryarchaeota; Halobacteria; Halobacteriales; Halobacteriaceae; Natrialba.
 TIGR_ID:  0
 SP_ID:    HALSA HALSP NATPD HALMA HALWD HALVO HALSQ 
 Dom_ct: &Meth_hung_JF-1
 Gen_ID:  0
 Seq_acc: Nmag-assembly-04-2009  Contig75 Contig74 Contig73
 Name_chg: Contig75 Contig74 Contig73
 Seq_size:  4128710 254969 58508
 Seq_GC:  61.30 56.82 61.91
 #Seq_acc: Nmag-assembly-04-2009  Contig75 Contig74 Contig73 Contig1 Contig2 Contig3 Contig4 Contig5 Contig6 Contig7 Contig8 Contig9 Contig10 Contig11 Contig12 Contig13 Contig14 Contig15 Contig16 Contig17 Contig18 Contig19 Contig20 Contig21 Contig22 Contig23 Contig24 Contig25 Contig26 Contig27 Contig28 Contig29 Contig30 Contig31 Contig32 Contig33 Contig34 Contig35 Contig36 Contig37 Contig38 Contig39 Contig40 Contig41 Contig42 Contig43 Contig44 Contig45 Contig46 Contig47 Contig48 Contig49 Contig50 Contig51 Contig52 Contig53 Contig54 Contig55 Contig56 Contig57 Contig58 Contig59 Contig60 Contig61 Contig62 Contig63 Contig64 Contig65 Contig66 Contig67 Contig68 Contig69 Contig70 Contig71 Contig72 
 #Name_chg: Contig75 Contig74 Contig73 Contig1 Contig2 Contig3 Contig4 Contig5 Contig6 Contig7 Contig8 Contig9 Contig10 Contig11 Contig12 Contig13 Contig14 Contig15 Contig16 Contig17 Contig18 Contig19 Contig20 Contig21 Contig22 Contig23 Contig24 Contig25 Contig26 Contig27 Contig28 Contig29 Contig30 Contig31 Contig32 Contig33 Contig34 Contig35 Contig36 Contig37 Contig38 Contig39 Contig40 Contig41 Contig42 Contig43 Contig44 Contig45 Contig46 Contig47 Contig48 Contig49 Contig50 Contig51 Contig52 Contig53 Contig54 Contig55 Contig56 Contig57 Contig58 Contig59 Contig60 Contig61 Contig62 Contig63 Contig64 Contig65 Contig66 Contig67 Contig68 Contig69 Contig70 Contig71 Contig72 
 #Seq_size:  4128710 254969 58508 983 869 1014 924 921 989 977 924 952 927 1398 1347 1265 935 1002 932 985 929 880 976 924 914 958 942 620 1013 865 961 554 997 938 900 905 947 976 611 766 965 759 969 924 920 985 865 951 938 925 960 893 922 854 997 935 1072 708 1288 1548 1514 1712 1239 1715 1400 1777 1675 1644 1935 1467 1992 2000 1381 1075 2013
 #Seq_GC:  61.30 56.82 61.91 61.44 60.53 64.2 61.58 58.52 41.35 62.74 61.47 63.13 60.73 61.3 58.28 63.64 59.68 57.58 53.97 65.58 61.79 58.18 56.45 61.26 62.47 58.98 60.51 55.48 54.89 62.89 55.98 65.52 59.68 61.3 64.11 60.55 67.05 48.77 68.41 65.4 56.48 60.34 57.79 59.96 54.24 60.51 59.88 62.04 61.62 64.22 60.73 63.38 56.4 54.68 61.08 62.99 63.15 61.44 62.66 61.5 64.66 73.89 61.99 59.48 59.21 61.11 62.69 61.74 61.65 64.21 61.14 54.75 60.32 63.07 63.54
 Gene_ct:  0
 Pub_id:   
 Rel_date: Private
 Seq_src:  Joint Genome Institute
 Trna_opt: -o# -f# -m# -F# -HyA
 Trna_abr: Natr_maga-tRNAs
 Multiz:   Halophiles haloHalo1 haloSali1 natrPhar1 halMar1 haloWals1 haloVolc1
 Phylo:    (((((haloHalo1,haloSali1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1))
 
 Org_abr:  Carb_hydr_Z-2901
 Org_name: Carboxydothermus hydrogenoformans Z-2901
 Menu_name: Carboxydothermus hydrogenoformans
 Domain:   Bacteria
 DB_name: carbHydrZ2901
 
 Org_abr:  Baci_halo
 Pub_id:   11058132
 
 Org_abr:  Baci_subt
 
 Org_abr:  Brad_japo
 
 Org_abr:  Myco_smeg_MC2_155
 Multiz:   Mycobacterium mycoTube_H37RV
 Phylo:    (mycoSmeg_MC2_155,mycoTube_H37RV)
 
 Org_abr:  Myco_tube_H37Rv
 Pub_id:   9634230
 Multiz:   Mycobacterium mycoSmeg_MC2_155
 Phylo:    (mycoSmeg_MC2_155,mycoTube_H37RV)
 
 Org_abr:  Shew_ANA3
 DB_name:  shewANA3
 SP_ID:    SHESA SHEON
 Multiz:  Shewanella shewPutrCN32 shewW318 shewOnei shewLoihPV4 shewMR4 shewMR7 shewAmaz shewFrig shewBalt shewDeni
 Phylo:  (((((((shewPutrCN32,shewW318),(shewOnei,shewMR7)),(shewANA3,shewMR4)),shewBalt),(shewFrig,shewDeni)),shewAmaz),shewLoihPV4)
 #Phylo:  (((((((shewMR4,shewMR7),shewANA3),shewOnei),(shewPutrCN32,shewW318)),shewLoihPV4),shewFrig),(shewAmaz,shewBalt))
 
 
 Org_abr:  Shew_MR4
 DB_name:  shewMR4
 SP_ID:    SHESM SHEON
 Multiz:  Shewanella shewANA3 shewPutrCN32 shewW318 shewOnei shewLoihPV4 shewMR7 shewAmaz shewFrig shewBalt shewDeni
 Phylo:  (((((((shewPutrCN32,shewW318),(shewOnei,shewMR7)),(shewANA3,shewMR4)),shewBalt),(shewFrig,shewDeni)),shewAmaz),shewLoihPV4)
 
 Org_abr:  Shew_MR7
 DB_name:  shewMR7
 SP_ID:    SHESR SHEON
 Multiz:  Shewanella shewANA3 shewPutrCN32 shewW318 shewOnei shewLoihPV4 shewMR4 shewAmaz shewFrig shewBalt shewDeni
 Phylo:  (((((((shewPutrCN32,shewW318),(shewOnei,shewMR7)),(shewANA3,shewMR4)),shewBalt),(shewFrig,shewDeni)),shewAmaz),shewLoihPV4)
 
 Org_abr:  Shew_W318
 DB_name:  shewW318
 SP_ID:    SHESW SHEON
 Multiz:  Shewanella shewANA3 shewPutrCN32 shewOnei shewLoihPV4 shewMR4 shewMR7 shewAmaz shewFrig shewBalt shewDeni
 Phylo:  (((((((shewPutrCN32,shewW318),(shewOnei,shewMR7)),(shewANA3,shewMR4)),shewBalt),(shewFrig,shewDeni)),shewAmaz),shewLoihPV4)
 
 Org_abr:  Shew_amaz_SB2B
 DB_name:  shewAmaz
 SP_ID:    SHEAM SHEON
 Multiz:  Shewanella shewANA3 shewPutrCN32 shewW318 shewOnei shewLoihPV4 shewMR4 shewMR7 shewFrig shewBalt shewDeni
 Phylo:  (((((((shewPutrCN32,shewW318),(shewOnei,shewMR7)),(shewANA3,shewMR4)),shewBalt),(shewFrig,shewDeni)),shewAmaz),shewLoihPV4)
 
 Org_abr:  Shew_deni_OS217
 DB_name:  shewDeni
 SP_ID:    SHEDO SHEON
 Multiz:  Shewanella shewANA3 shewPutrCN32 shewW318 shewOnei shewLoihPV4 shewMR4 shewMR7 shewAmaz shewFrig shewBalt shewDeni
 Phylo:  (((((((shewPutrCN32,shewW318),(shewOnei,shewMR7)),(shewANA3,shewMR4)),shewBalt),(shewFrig,shewDeni)),shewAmaz),shewLoihPV4)
 
 Org_abr:  Shew_frig_NCIMB_400
 DB_name:  shewFrig
 SP_ID:    SHEFN SHEON
 Multiz:  Shewanella shewANA3 shewPutrCN32 shewW318 shewOnei shewLoihPV4 shewMR4 shewMR7 shewAmaz shewBalt shewDeni
 Phylo:  (((((((shewPutrCN32,shewW318),(shewOnei,shewMR7)),(shewANA3,shewMR4)),shewBalt),(shewFrig,shewDeni)),shewAmaz),shewLoihPV4)
 
 Org_abr:  Shew_onei
 DB_name:  shewOnei
 Multiz:  Shewanella shewANA3 shewPutrCN32 shewW318 shewLoihPV4 shewMR4 shewMR7 shewAmaz shewFrig shewBalt shewDeni
 Phylo:  (((((((shewPutrCN32,shewW318),(shewOnei,shewMR7)),(shewANA3,shewMR4)),shewBalt),(shewFrig,shewDeni)),shewAmaz),shewLoihPV4)
 
 Org_abr:  Shew_balt_OS155
 DB_name:  shewBalt
 SP_ID:    SHEON
 Multiz:  Shewanella shewANA3 shewPutrCN32 shewW318 shewOnei shewLoihPV4 shewMR4 shewMR7 shewAmaz shewFrig shewDeni
 Phylo:  (((((((shewPutrCN32,shewW318),(shewOnei,shewMR7)),(shewANA3,shewMR4)),shewBalt),(shewFrig,shewDeni)),shewAmaz),shewLoihPV4)
 
 Org_abr:  Shew_loih_PV-4
 DB_name:  shewLoihPV4
 SP_ID:    SHELP SHEON
 Multiz:  Shewanella shewANA3 shewPutrCN32 shewW318 shewOnei shewMR4 shewMR7 shewAmaz shewFrig shewBalt shewDeni
 Phylo:  (((((((shewPutrCN32,shewW318),(shewOnei,shewMR7)),(shewANA3,shewMR4)),shewBalt),(shewFrig,shewDeni)),shewAmaz),shewLoihPV4)
 
 Org_abr:  Shew_putr_CN-32
 DB_name:  shewPutrCN32
 SP_ID:    SHEPU SHEON
 Multiz:  Shewanella shewANA3 shewW318 shewOnei shewLoihPV4 shewMR4 shewMR7 shewAmaz shewFrig shewBalt shewDeni
 Phylo:  (((((((shewPutrCN32,shewW318),(shewOnei,shewMR7)),(shewANA3,shewMR4)),shewBalt),(shewFrig,shewDeni)),shewAmaz),shewLoihPV4)
 
 Org_abr:  Shew_putr_CN-32
 DB_name:  shewPutrCN32
 SP_ID:    SHEPU SHEON
 Multiz:  Shewanella shewANA3 shewW318 shewOnei shewLoihPV4 shewMR4 shewMR7 shewAmaz shewFrig shewBalt shewDeni
 Phylo:  (((((((shewPutrCN32,shewW318),(shewOnei,shewMR7)),(shewANA3,shewMR4)),shewBalt),(shewFrig,shewDeni)),shewAmaz),shewLoihPV4)
 
 Org_abr:  Shew_wood_ATCC_51908
 Menu_name: Shewanella woodyi ATCC 51908
 DB_name:  shewWood
 SP_ID:    SHEPU SHEON
 
 Org_abr:  Shew_hali_HAW_EB4
 Menu_name: Shewanella halifaxensis HAW EB4
 DB_name:  shewHali
 SP_ID:    SHEPU SHEON
 
 Org_abr:  Shew_peal_ATCC_700345
 Menu_name: Shewanella pealeana ATCC 700345
 DB_name:  shewPeal
 SP_ID:    SHEPU SHEON
 
 Org_abr:  Shew_sedi_HAW-EB3
 Menu_name: Shewanella sediminis HAW-EB3
 DB_name:  shewSedi_HAW_EB3
 SP_ID:    SHEPU SHEON
 
 Org_abr:  Heli_pylo_G27
 BLAT_IDs: 61010 61011
 Rel_date: Oct 2008
 Seq_src: Washington University in St. Louis
 Multiz:  HeliCampMultiZ heliPylo_SHI470 heliPylo_J99 heliPylo_26695 heliPylo_HPAG1 heliAcin_SHEEBA heliHepa campJeju
 Phylo:  (campJeju,(heliHepa,(heliAcin_SHEEBA,((heliPylo_G27,heliPylo_SHI470),(heliPylo_HPAG1,(heliPylo_J99,heliPylo_26695))))))
 
 Org_abr:  Heli_pylo_J99
 SP_ID:    HELPJ 
 Multiz:  HeliCampMultiZ heliPylo_26695 heliPylo_HPAG1 heliPylo_G27 heliPylo_SHI470 heliAcin_SHEEBA heliHepa campJeju
 Phylo:  (campJeju,(heliHepa,(heliAcin_SHEEBA,((heliPylo_G27,heliPylo_SHI470),(heliPylo_HPAG1,(heliPylo_J99,heliPylo_26695))))))
 
 Org_abr:  Camp_jeju
 Multiz:  HeliCampMultiZ heliPylo_J99 heliPylo_26695 heliPylo_HPAG1 heliPylo_G27 heliPylo_SHI470 heliAcin_SHEEBA heliHepa
 Phylo:  (campJeju,(heliHepa,(heliAcin_SHEEBA,((heliPylo_G27,heliPylo_SHI470),(heliPylo_HPAG1,(heliPylo_J99,heliPylo_26695))))))
 
 Org_abr: Heli_acin_Sheeba 
 Multiz:  HeliCampMultiZ heliPylo_J99 heliPylo_26695 heliPylo_HPAG1 heliPylo_G27 heliPylo_SHI470 heliHepa campJeju
 Phylo:  (campJeju,(heliHepa,(heliAcin_SHEEBA,((heliPylo_G27,heliPylo_SHI470),(heliPylo_HPAG1,(heliPylo_J99,heliPylo_26695))))))
 
 Org_abr: Heli_hepa 
 Multiz:  HeliCampMultiZ heliPylo_J99 heliPylo_26695 heliPylo_HPAG1 heliPylo_G27 heliPylo_SHI470 heliAcin_SHEEBA campJeju
 Phylo:  (campJeju,(heliHepa,(heliAcin_SHEEBA,((heliPylo_G27,heliPylo_SHI470),(heliPylo_HPAG1,(heliPylo_J99,heliPylo_26695))))))
 
 Org_abr: Heli_pylo_26695 
 Multiz:  HeliCampMultiZ heliPylo_J99 heliPylo_HPAG1 heliPylo_G27 heliPylo_SHI470 heliAcin_SHEEBA heliHepa campJeju
 Phylo:  (campJeju,(heliHepa,(heliAcin_SHEEBA,((heliPylo_G27,heliPylo_SHI470),(heliPylo_HPAG1,(heliPylo_J99,heliPylo_26695))))))
 
 Org_abr: Heli_pylo_HPAG1 
 Multiz:  HeliCampMultiZ heliPylo_J99 heliPylo_26695 heliPylo_G27 heliPylo_SHI470 heliAcin_SHEEBA heliHepa campJeju
 Phylo:  (campJeju,(heliHepa,(heliAcin_SHEEBA,((heliPylo_G27,heliPylo_SHI470),(heliPylo_HPAG1,(heliPylo_J99,heliPylo_26695))))))
 
 Org_abr:  Heli_pylo_Shi470
 Rel_date: July 2008
 Seq_src:  Washington University Medical School
 Multiz:  HeliCampMultiZ heliPylo_J99 heliPylo_26695 heliPylo_G27 heliAcin_SHEEBA heliHepa campJeju
 Phylo:  (campJeju,(heliHepa,(heliAcin_SHEEBA,(heliPylo_G27,heliPylo_SHI470),(heliPylo_HPAG1,(heliPylo_J99,heliPylo_26695)))))
 Phylo:  (campJeju,(heliHepa,(heliAcin_SHEEBA,((heliPylo_G27,heliPylo_SHI470),(heliPylo_HPAG1,(heliPylo_J99,heliPylo_26695))))))
 
 Org_abr:  Aero_pern
 Multiz:   Desulfurococcales hypeButy1 stapMari1 desuKamc1 igniHosp1
 Phylo:    ((((stapMari1,desuKamc1),hypeButy1),aerPer1),igniHosp1)
 
 Org_abr: Stap_hell
 Org_name: Staphylothermus hellenicus
 Menu_name: Staphylothermus hellenicus
 Domain:  Archaea
 DB_name: stapHell0
 Iso_pub: 11155985
 Rel_date: January 2009
 DB_src:  ORNL
 Tax_name: Staphylothermus hellenicus
 BLAT_IDs: 61021 61022
 Tax_ID: 591019: Archaea; Crenarchaeota; Thermoprotei; Desulfurococcales; Desulfurococcaceae; Staphylothermus.
 TIGR_ID: 0
 SP_ID: 0
 Dom_ct: &Pyro_hori
 Gen_ID:  0
 Seq_acc: Stap_hell-draft0109  Contig4 Contig1 Contig3 Contig2 Contig5 Contig6 Contig7 
 Name_chg: Contig4 Contig1 Contig3 Contig2 Contig5 Contig6 Contig7 
 Seq_size:  645254 269689 255976 218769 177705 11137 636
 Seq_GC:  36.87 36.6 36.72 37.3 36.55 38.23 40.72
 Seq_src: Joint Genome Institute
 Multiz:   Desulfurococcales stapMari1 desuKamc1 hypeButy1 aerPer1 igniHosp1
 Phylo:    (((((stapHell0,stapMari1),desuKamc1),hypeButy1),aerPer1),igniHosp1)
 
 Org_abr:  Stap_mari_F1
 DB_name: stapMari1
 Iso_pub: Fiala G, Stetter KO, Jannasch HW, Langworthy TA, and Madon J (1986) "<I>Staphylothermus marinus sp.</I> nov. represents a novel genus of extremely thermophilic submarine heterotrophic archaebacteria growing up to 98 degree C" (1986) <I>Systematic and Applied Microbiology</I> <B>8</B>: 106.
 Multiz:   Desulfurococcales desuKamc1 hypeButy1 aerPer1 igniHosp1
 Phylo:    ((((stapMari1,desuKamc1),hypeButy1),aerPer1),igniHosp1)
 
 Org_abr:  Hype_buty
 DB_name:  hypeButy1
 Iso_pub: 2113915
 Multiz:   Desulfurococcales stapMari1 aerPer1 desuKamc1 igniHosp1
 Phylo:    ((((stapMari1,desuKamc1),hypeButy1),aerPer1),igniHosp1)
 
 Org_abr:  Igni_hosp_KIN4_I
 DB_name:  igniHosp1
 Org_name: Ignicoccus hospitalis KIN4 I
 Menu_name: Ignicoccus hospitalis
 # Iso_pub: 17392210
 SP_ID:   HYPBU STAMF 
 Multiz:   Desulfurococcales stapMari1 hypeButy1 aerPer1 desuKamc1
 Phylo:    ((((stapMari1,desuKamc1),hypeButy1),aerPer1),igniHosp1)
 Sp_info:  &nbsp;&nbsp;<I>I. hospitalis</I> is a chemolithoautotrophic, hyperthermophilic crenarchaeon that was isolated from a submarine hydrothermal system at the Kolbeinsey Ridge, to the north of Iceland (<a href="http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&dopt=AbstractPlus&list_uids=17392210">Paper <I>et al.</I>, <I>Int J Syst Evol Microbiol.</I> 2007, 57:803-808</a>).  It is the only organism known so far which is able to serve as a host for 'Nanoarchaeum equitans', the only cultivated member of the Nanoarchaeota.  The genome sequencing was a collaboration between Diversa and the Joint Genome Institute, publicly available <a href="http://genome.jgi-psf.org/draft_microbes/ign_k/ign_k.home.html">here</a>.  Draft annotation within the genome browser is available from <a href="http://genome.ornl.gov/microbial/igni/">Oak Ridge National Labs</a>.   
 
 Org_abr:  Desu_kamc_1221n
 Menu_name: Desulfurococcus kamchatkensis
 DB_name:  desuKamc1
 SP_ID:   STAMF HYPBU AERPE
 Pub_id:   19114480
 Iso_pub:   
 Rel_date: Dec 2008
 Seq_src: Institute of Microbiology  of the Russian Academy of Sciences
 Multiz:   Desulfurococcales stapMari1 hypeButy1 aerPer1 igniHosp1
 Phylo:    ((((stapMari1,desuKamc1),hypeButy1),aerPer1),igniHosp1)
 
 Org_abr:  uncu_meth_archaeon_RC-I
 Org_name: uncultured methanogenic archaeon RC-I
 Menu_name: Uncultured methanogenic archaeon RC-I
 Domain:   Archaea
 DB_name:  uncuMeth_RCI
 Tax_name: Uncultured methanogenic archaeon RC-I
 Iso_pub:
 Tax_ID:   351160: Archaea; Euryarchaeota; environmental samples. 
 TIGR_ID:  0
 JGI_ID:   0
 SP_ID:    UNCMA 
 Gen_ID:   020979 
 Seq_acc:  NC_009464
 Name_chg: chr
 
 Org_abr:  Cand_Meth_boonei_6A8
 Org_name: Candidatus Methanoregula boonei 6A8
 Menu_name: Methanoregula boonei
 Domain:   Archaea
 Iso_pub: 16699521
 DB_name:  methBoon1
 DB_src:   NCBI
 Tax_name: Candidatus Methanoregula boonei 6A8
 SP_ID:    METLZ METHJ METMJ METAC METBU 
 Multiz:   Methanomicrobiales mculMari1 methLabrZ_1 methHung1 
 Phylo:   (((mculMari1,methBoon1),methLabrZ_1),methHung1)
 Dom_ct:	&Meth_kand
 
 Org_abr:  Cand_Kora_cryptofilum_OPF8
 Org_name: Candidatus Korarchaeum cryptofilum OPF8
 Menu_name: Korarchaeum cryptofilum OPF8
 Domain:   Archaea
 Iso_pub: 18535141 
 DB_name:  koraCryp1
 DB_src:   NCBI
 Tax_name: Candidatus Korarchaeum cryptofilum OPF8
 BLAT_IDs: 20482 20483
 Tax_ID:   374847: Archaea; Korarchaeota; Candidatus Korarchaeum. 
 TIGR_ID:  0
 Pub_id:   18535141
 JGI_ID:   0
 SP_ID:    
 String_ID: 0
 Dom_ct:   &Igni_hosp_KIN4_I
 Rel_date: Mar 2008
 Seq_src:  DOE Joint Genome Institute
 
 Org_abr:  Pseu_halo_TAC125
 Domain: Bacteria
 
 Org_abr:  Neis_gono_FA_1090
 DB_name:  neisGono_FA1090_1
 Multiz: Neisseria neisMeni_MC58_1 neisMeni_FAM18_1 neisMeni_Z2491_1
 Phylo: (((neisMeni_FAM18_1, neisMeni_MC58_1), neisMeni_Z2491_1), neisGono_FA1090_1)
 
 Org_abr:  Neis_meni_MC58
 DB_name:  neisMeni_MC58_1
 SP_ID:    NEIMB
 Multiz: Neisseria neisMeni_FAM18_1 neisMeni_Z2491_1 neisGono_FA1090_1
 Phylo: (((neisMeni_FAM18_1, neisMeni_MC58_1), neisMeni_Z2491_1), neisGono_FA1090_1)
 
 Org_abr:  Neis_meni_FAM18
 DB_name:  neisMeni_FAM18_1
 SP_ID:    NEIMF 
 Multiz: Neisseria neisMeni_MC58_1 neisMeni_Z2491_1 neisGono_FA1090_1
 Phylo: (((neisMeni_FAM18_1, neisMeni_MC58_1), neisMeni_Z2491_1), neisGono_FA1090_1)
 
 Org_abr:  Neis_meni_Z2491
 DB_name:  neisMeni_Z2491_1
 SP_ID:    NEIMA 
 Multiz: Neisseria neisMeni_MC58_1 neisMeni_FAM18_1 neisGono_FA1090_1
 Phylo: (((neisMeni_FAM18_1, neisMeni_MC58_1), neisMeni_Z2491_1), neisGono_FA1090_1)
 
 # Fixing bad (non-unique) database naming
 
 Org_abr:  Cyan_bact_Yellowstone_A-Prime
 DB_name:  cyanBact_YELLOWSTONE_A
 
 Org_abr:  Cyan_bact_Yellowstone_B-Prime
 DB_name:  cyanBact_YELLOWSTONE_B
 
 Org_abr:  Lept_borg_serovar_Hardjo-bovis_JB197
 DB_name:  leptBorg_JB197
 
 Org_abr:  Lept_borg_serovar_Hardjo-bovis_L550
 DB_name:  leptBorg_L550
 
 # Fixing incorrect chromosome naming
 
 Org_abr:  Buch_aphi
 Seq_acc:  NC_004545 NC_004555
 Name_chg: chr plasmid_pBBp1
 
 Org_abr:  Buch_sp
 Seq_acc:  NC_002252 NC_002253 NC_002528
 Name_chg: plasmid_pTrp plasmid_pLeu chr
 
 Org_abr:  Esch_coli_CFT073
 SP_ID:    ECOLI
 
 Org_abr:  Esch_coli_536
 SP_ID:    ECOL5 ECOLI
 
 Org_abr:  Esch_coli_O157H7_EDL933
 SP_ID:    ECO57 ECOLI
 
 Org_abr:  Esch_coli_K12
 SP_ID:    ECOLI ECO57
 Multiz:   Enterobacteria eschColi_O157H7 eschColi_APEC_O1 ente638 shigFlex_2A salmTyph salmEnte_PARATYPI_ATC yersPest_CO92 blocFlor buchSp
 Phylo:    ((((((((eschColi_K12,eschColi_0157H7),eschColi_APEC_O1),ente638),shigFlex_2A),(salmTyph,salmEnte_PARATYPI_ATC)),yersPest_CO92),blocFlor),buchSp)
 
 Org_abr:  Esch_coli_O157H7
 JGI_ID:   637000108
 Seq_acc:  NC_002127 NC_002128 NC_002695
 Name_chg: plasmid_pOSAK1 plasmid_pO157 chr 
 SP_ID:    ECO57 ECOLI
 
 Org_abr:  Esch_coli_APEC_O1
 SP_ID:    ECOLI ECOK1 
 
 Org_abr:  Esch_coli_W3110
 Seq_acc:  AC_000091
 Name_chg: chr
 Gb_acc:   AP009048
 SP_ID:    ECO57 ECOLI
 
 Org_abr:  Salm_ente_Paratypi_ATCC_9150
 Tax_ID:   295319: Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacteriales; Enterobacteriaceae; Salmonella; Salmonella enterica subsp. enterica 
 
 Org_abr:  Salm_ente_Choleraesuis
 Tax_ID:   321314: Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacteriales; Enterobacteriaceae; Salmonella; Salmonella enterica subsp. enterica 
 
 Org_abr:  Fran_tula_tularensis
 Seq_acc:  NC_006570
 Name_chg: chr
 
 Org_abr:  Haem_infl
 DB_name:  haemInfl_KW20
 Org_name: Haemophilus influenzae
 Menu_name: Haemophilus influenzae Rd KW20
 Seq_acc:  NC_000907
 Name_chg: chr
 Tax_ID:   71421: Bacteria; Proteobacteria; Gammaproteobacteria; Pasteurellales; Pasteurellaceae; Haemophilus. 
 Tax_name: Haemophilus influenzae Rd KW20
 Seq_size: 1830138
 Gene_ct:  1788 
 Seq_GC:   38.15
 Seq_src:  TIGR
 Pub_id:   7542800
 Rel_date: 1995
 Gen_ID:   025
 
 Org_abr:  Stap_sapr
 Seq_acc:  NC_007350 NC_007351 NC_007352
 Name_chg: chr plasmid_pSSP1 plasmid_PSSP2
 
 Org_abr:  Stre_coel
 Seq_acc:  NC_003888 NC_003903 NC_003904
 Name_chg: chr plasmid_SCP1 plasmid_SCP2
 
 Org_abr:  Clos_diff_QCD-32g58
 Seq_acc:  NC_007774 
 Name_chg: chr
 
 Org_abr:  Buch_aphi_Sg
 Seq_acc:  NC_004061
 Name_chg: chr
 
 Org_abr:  Rhiz_legu_bv_viciae_3841
 Seq_acc:  NC_008378 NC_008379 NC_008380 NC_008381 NC_008382 NC_008383 NC_008384
 Name_chg: plasmid_pRL12 plasmid_pRL9 chr plasmid_pRL10 plasmid_pRL7 plasmid_pRL8 plasmid_pRL11 
 
 Org_abr:  Borr_burg
 Seq_acc:  NC_000948 NC_000949 NC_000950 NC_000951 NC_000952 NC_000953 NC_000954 NC_000955 NC_000956 NC_000957 NC_001318 NC_001849 NC_001850 NC_001851 NC_001852 NC_001853 NC_001854 NC_001855 NC_001856 NC_001857 NC_001903 NC_001904
 Name_chg: plasmid_cp32-1 plasmid_cp32-3 plasmid_cp32-4 plasmid_cp32-6 plasmid_cp32-7 plasmid_cp32-8 plasmid_cp32-9 plasmid_lp21 plasmid_lp56 plasmid_lp5 chr plasmid_lp17 plasmid_lp25 plasmid_lp28-1 plasmid_lp28-2 plasmid_lp28-3 plasmid_lp28-4 plasmid_lp36 plasmid_lp38 plasmid_lp54 plasmid_cp26 plasmid_cp9 
 
 Org_abr:  Lact_sali_UCC118
 Tax_name: Lactobacillus salivarius subsp. salivarius UCC118
 Tax_ID:   362948: Bacteria; Firmicutes; Lactobacillales; Lactobacillaceae; Lactobacillus.
 Seq_acc:  NC_006529 NC_006530 NC_007929 NC_007930
 Name_chg: plasmid_pSF118-20 plasmid_pSF118-44 chr plasmid_pMP118
 
 Org_abr:  Baci_halo
 Pub_id:   11058132
 
 Org_abr:  Flav_psyc_JIP02_86
 DB_name: flavPsyc
 
 Org_abr:  Burk_383
 Multiz:   Burkholderia burkCeno_HI2424 burkXeno_LB400 burkCeno_AU_1054 burkCepa_AMMD burkViet_G4 burkThai_E264 burkPseu_1106A burkMall_ATCC23344
 Phylo: (burkMall_ATCC23344,burkMall_NCTC_10247),((((burkPseu_K96243,((((((burk383,burkCeno_HI2424),burkXeno_LB400),burkCeno_AU_1054),burkCepa_AMMD),burkViet_G4),burkThai_E264)),burkPseu_668),burkPseu_1710B),burkPseu_1106A)),burkMall_SAVP1,burkMall_NCTC_10229)
 
 Org_abr:  Burk_ceno_AU_1054
 SP_ID:    BURS3 BURCA BURCH BURCM BURP0 BURP1 BURP6 BURTA BURVI BURXL
 Multiz:   Burkholderia burkCeno_HI2424 burkXeno_LB400 burk383 burkCepa_AMMD burkViet_G4 burkThai_E264 burkPseu_1106A burkMall_ATCC23344
 Phylo: (burkMall_ATCC23344,burkMall_NCTC_10247),((((burkPseu_K96243,((((((burk383,burkCeno_HI2424),burkXeno_LB400),burkCeno_AU_1054),burkCepa_AMMD),burkViet_G4),burkThai_E264)),burkPseu_668),burkPseu_1710B),burkPseu_1106A)),burkMall_SAVP1,burkMall_NCTC_10229)
 
 Org_abr:  Burk_ceno_HI2424
 SP_ID:    BURS3 BURCA BURCH BURCM BURP0 BURP1 BURP6 BURTA BURVI BURXL
 Multiz:   Burkholderia bburkCeno_AU_1054 burk383 burkXeno_LB400 burkCepa_AMMD burkViet_G4 burkThai_E264 burkPseu_1106A burkMall_ATCC23344
 Phylo: (burkMall_ATCC23344,burkMall_NCTC_10247),((((burkPseu_K96243,((((((burk383,burkCeno_HI2424),burkXeno_LB400),burkCeno_AU_1054),burkCepa_AMMD),burkViet_G4),burkThai_E264)),burkPseu_668),burkPseu_1710B),burkPseu_1106A)),burkMall_SAVP1,burkMall_NCTC_10229)
 
 Org_abr:  Burk_cepa_AMMD
 SP_ID:    BURS3 BURCA BURCH BURCM BURP0 BURP1 BURP6 BURTA BURVI BURXL
 Org_abr:  Burk_mall_ATCC_23344
 SP_ID:    BURS3 BURCA BURCH BURCM BURP0 BURP1 BURP6 BURTA BURVI BURXL
 Org_abr:  Burk_pseu_1106a
 SP_ID:    BURS3 BURCA BURCH BURCM BURP0 BURP1 BURP6 BURTA BURVI BURXL
 Org_abr:  Burk_thai_E264
 SP_ID:    BURS3 BURCA BURCH BURCM BURP0 BURP1 BURP6 BURTA BURVI BURXL
 Org_abr:  Burk_viet_G4
 SP_ID:    BURS3 BURCA BURCH BURCM BURP0 BURP1 BURP6 BURTA BURVI BURXL
 Org_abr:  Burk_xeno_LB400
 SP_ID:    BURS3 BURCA BURCH BURCM BURP0 BURP1 BURP6 BURTA BURVI BURXL
 
 Org_abr:  Yers_pseu_IP_31758
 Org_name: Yersinia pseudotuberculosis IP 31758
 Menu_name: Yersinia pseudotuberculosis IP31758
 Domain:   Bacteria
 DB_name:  yersPseu_IP31758
 
 Org_abr:  Acid_bott_virus
 Org_name: Acidianus bottle-shaped virus
 Menu_name: Acidianus bottle-shaped virus
 Domain:   Viruses
 Rel_date: 5/11/2007
 Pub_id: 17412384 
 
 Org_abr:  Acid_fila_virus_1
 Org_name: Acidianus filamentous virus 1
 Menu_name: Acidianus filamentous virus 1
 Domain:   Viruses
 Rel_date: 2/23/2004
 Pub_id: 14592760 
 
 
 Org_abr:  Acid_fila_virus_2
 Org_name: Acidianus filamentous virus 2
 Menu_name: Acidianus filamentous virus 2
 Domain:   Viruses
 DB_name:  acidFila_VIRUS_2
 DB_src:   VIRUS
 Rel_date: 4/01/2005
 Pub_id: 15901711
 
 
 Org_abr:  Acid_fila_virus_3
 Org_name: Acidianus filamentous virus 3
 Menu_name: Acidianus filamentous virus 3
 Domain:   Vi15994761ruses
 DB_name:  acidFila_VIRUS_3
 DB_src:   VIRUS
 Rel_date: 9/16/2007
 Pub_id: 17942536
 
 Org_abr:  Acid_fila_virus_6
 Org_name: Acidianus filamentous virus 6
 Menu_name: Acidianus filamentous virus 6
 Domain:   Viruses
 DB_name:  acidFila_VIRUS_6
 DB_src:    VIRUS
 Rel_date: 9/16/2007
 Pub_id: 17942536
 
 
 Org_abr:  Acid_fila_virus_7
 Org_name: Acidianus filamentous virus 7
 Menu_name: Acidianus filamentous virus 7
 Domain:   Viruses
 DB_name:  acidFila_VIRUS_7
 Rel_date: 9/16/2007
 Pub_id: 17942536
 
 
 Org_abr:  Acid_fila_virus_8
 Org_name: Acidianus filamentous virus 8
 Menu_name: Acidianus filamentous virus 8
 Domain:   Viruses
 DB_name:  acidFila_VIRUS_8
 DB_src:   VIRUS
 Rel_date: 9/16/2007
 Pub_id: 17942536
 
 
 Org_abr:  Acid_fila_virus_9
 Org_name: Acidianus filamentous virus 9
 Menu_name: Acidianus filamentous virus 9
 Domain:   Viruses
 DB_name:  acidFila_VIRUS_9
 DB_src:   VIRUS
 Rel_date: 3/31/2009
 Pub_id: 18565736 
 
 
 
 Org_abr:  Acid_rods_virus_1
 Org_name: Acidianus rod-shaped virus 1
 Menu_name: Acidianus rod-shaped virus 1
 Domain:   Viruses
 DB_name:  acidRods_VIRUS_1
 DB_src:   VIRUS
 Rel_date: 9/12/2005
 Pub_id: 15866073 
 
 
 Org_abr:  Acid_twot_virus
 Org_name: Acidianus two-tailed virus
 Menu_name: Acidianus two-tailed virus
 Domain:   Viruses
 DB_name:  acidTwot_VIRUS
 DB_src:   VIRUS
 Rel_date: 9/12/2005
 Pub_id: 16677670
 
 
 Org_abr:  Arch_BJ1_virus
 Org_name: Archaeal BJ1 virus
 Menu_name: Archaeal BJ1 virus
 Domain:   Viruses
 DB_name:  archBJ1_VIRUS
 DB_src:   VIRUS
 Rel_date: 12/15/2006
 Pub_id: 17996081
 
 
 
 Org_abr:  Halo_phag_SH1
 Org_name: Haloarcula phage SH1
 Menu_name: Haloarcula phage SH1
 Domain:   Viruses
 DB_name:  haloPhag_SH1
 DB_src:   VIRUS
 Rel_date: 8/02/2005
 Pub_id: 15994804 
 
 
 Org_abr:  Halo_phag_HF2
 Org_name: Halorubrum phage HF2
 Menu_name: Halorubrum phage HF2
 Rel_date: 11/20/2002
 Domain:   Viruses
 DB_name:  haloPhag_HF2
 DB_src:   VIRUS
 
 
 
 
 Org_abr:  Halo_HF1
 Org_name: Halovirus HF1
 Menu_name: Halovirus HF1
 Domain:   Viruses
 DB_name:  haloHF1
 DB_src:   VIRUS
 Tax_name: Halovirus HF1
 Rel_date: 07/07/2003
 Pub_id: 15090523 
 
 
 
 Org_abr:  His1_viru
 Org_name: His1 virus
 Menu_name: His1 virus
 Domain:   Viruses
 DB_name:  his1Viru
 DB_src:   VIRUS
 Rel_date: 3/24/2006
 Pub_id: 9765495 
 
 
 Org_abr:  His2_viru
 Org_name: His2 virus
 Menu_name: His2 virus
 Domain:   Viruses
 DB_name:  his2Viru
 DB_src:   VIRUS
 Rel_date: 3/24/2006
 Pub_id: 16530800 
 
 
 Org_abr:  Meth_phag_psiM2
 Org_name: Methanobacterium phage psiM2
 Menu_name: Methanobacterium phage psiM2
 Domain:   Viruses
 DB_name:  methPhag_PSIM2
 DB_src:   VIRUS
 Rel_date: 6/24/1998
 Pub_id: 9791169 
 
 
 Org_abr:  Meth_phag_psiM100
 Org_name: Methanothermobacter phage psiM100
 Menu_name: Methanothermobacter phage psiM100
 Domain:   Viruses
 DB_name:  methPhag_PSIM100
 DB_src:   VIRUS
 Rel_date: 12/13/2000
 Pub_id: 11544247 
 
 Org_abr:  Natr_phag_PhiCh1
 Rel_date: 07/30/2002
 
 Org_abr:  Pyro_sphe_virus
 Org_name: Pyrobaculum spherical virus
 Menu_name: Pyrobaculum spherical virus
 Domain:   Viruses
 DB_name:  pyroSphe_VIRUS
 DB_src:   VIRUS
 Rel_date: 05/01/2004
 Pub_id: 15193919 
 
 
 Org_abr:  Pyro_abys_virus_1
 Org_name: Pyrococcus abyssi virus 1
 Menu_name: Pyrococcus abyssi virus 1
 Domain:   Viruses
 DB_name:  pyroAbys_VIRUS_1
 DB_src:   VIRUS
 Rel_date: 06/21/2007
 
 
 Org_abr:  Sulf_isla_filamentous_virus
 Org_name: Sulfolobus islandicus filamentous virus
 Menu_name: Sulfolobus islandicus filamentous virus
 Domain:   Viruses
 DB_name:  sulfIsla_FILAMENTOUS
 DB_src:   VIRUS
 Rel_date: 11/06/2001
 Pub_id: 10662621
 
 
 Org_abr:  Sulf_isla_rod-shaped_virus_1
 Org_name: Sulfolobus islandicus rod-shaped virus 1
 Menu_name: Sulfolobus islandicus rod-shaped virus 1
 Domain:   Viruses
 DB_name:  sulfIsla_ROD_SHAPED_V
 DB_src:   VIRUS
 Rel_date: 03/05/2002
 Pub_id: 11878892 
 
 
 
 Org_abr:  Sulf_isla_rod-shaped_virus_2
 Org_name: Sulfolobus islandicus rod-shaped virus 2
 Menu_name: Sulfolobus islandicus rod-shaped virus 2
 Domain:   Viruses
 DB_name:  sulfIsla_ROD_SHAPED_VIRUS_2
 DB_src:   VIRUS
 Rel_date: 11/29/2001
 Pub_id: 11878892 
 
 
 
 Org_abr:  Sulf_spin_virus_4
 Org_name: Sulfolobus spindle-shaped virus 4
 Menu_name: Sulfolobus spindle-shaped virus 4
 Domain:   Viruses
 DB_name:  sulfSpin_VIRUS_4
 DB_src:   VIRUS
 Rel_date: 11/20/2007
 
 
 Org_abr:  Sulf_turr_icosahedral_virus
 Org_name: Sulfolobus turreted icosahedral virus
 Menu_name: Sulfolobus turreted icosahedral virus
 Domain:   Viruses
 DB_name:  sulfTurr_ICOSAHEDRAL
 DB_src:   VIRUS
 Rel_date: 06/04/2004
 
 
 Org_abr:  Sulf_viru_1
 Org_name: Sulfolobus virus 1
 Menu_name: Sulfolobus virus 1
 Domain:   Viruses
 DB_name:  sulfViru_1
 DB_src:   VIRUS
 Rel_date: 07/16/1988
 
 
 
 Org_abr:  Sulf_viru_2
 Org_name: Sulfolobus virus 2
 Menu_name: Sulfolobus virus 2
 Domain:   Viruses
 DB_name:  sulfViru_2
 DB_src:   VIRUS
 
 
 Org_abr:  Sulf_viru_Kamchatka_1
 Org_name: Sulfolobus virus Kamchatka 1
 Menu_name: Sulfolobus virus Kamchatka 1
 Domain:   Viruses
 DB_name:  sulfViru_KAMCHATKA_1
 DB_src:   VIRUS
 Rel_date: 02/10/2004
 Pub_id: 14747560 
 
 
 
 Org_abr:  Sulf_viru_Ragged_Hills
 Org_name: Sulfolobus virus Ragged Hills
 Menu_name: Sulfolobus virus Ragged Hills
 Domain:   Viruses
 DB_name:  sulfViru_RAGGED_HILLS
 DB_src:   VIRUS
 Rel_date: 02/10/2004
 Pub_id: 14747560 
 
 
 Org_abr:  Sulf_viru_STSV1
 Org_name: Sulfolobus virus STSV1
 Menu_name: Sulfolobus virus STSV1
 Domain:   Viruses
 DB_name:  sulfViru_STSV1
 DB_src:   VIRUS
 Rel_date: 09/05/2004
 Pub_id: 15994761
 
 Org_abr:  Ther_tena_spherical_virus_1
 Org_name: Thermoproteus tenax spherical virus 1
 Menu_name: Thermoproteus tenax spherical virus 1
 Domain:   Viruses
 DB_name:  therTena_SPHERICAL_VI
 DB_src:   VIRUS
 Rel_date: 12/17/2004
 Pub_id: 16682063
 
 Org_abr:  Clos_perf_SM101
 Domain:   Viruses
 
 Org_abr:  Schi_pomb
 DB_name:  schiPomb1
 Seq_acc:  NC_003424 NC_003423 NC_003421 NC_001326   
 Name_chg: chrI chrII chrIII chrM 
 Seq_size: 5579133 4539804 2452883 19431    
 Gene_ct:  2486 2020 1016 38    
 Seq_GC:   36.09 35.92 36.24 30.09    
 Rel_date: Jan 2008
 Seq_src:  Sanger Center, Schizosaccharomyces pombe European Sequencing Consortium (EUPOM), and Cold Spring Harbor
 Sprinzl:  764
 
 Org_abr:  Sacc_cere
 DB_name:  sacCer1
 Seq_acc:  NC_001133 NC_001134 NC_001135 NC_001136 NC_001137 NC_001138 NC_001139 NC_001140 NC_001141 NC_001142 NC_001143 NC_001144 NC_001145 NC_001146 NC_001147 NC_001148 NC_001224
 Name_chg: chr1 chr2 chr3 chr4 chr5 chr6 chr7 chr8 chr9 chr10 chr11 chr12 chr13 chr14 chr15 chr16 chrM 
 Sprinzl:  763
 
 Org_abr:  Aspe_fumi
 DB_name:  aspeFumi1
 Seq_acc:  NC_007194 NC_007195 NC_007196 NC_007197 NC_007198 NC_007199 NC_007200 NC_007201 NZ_AAHF00000000
 Name_chg: chr1 chr2 chr3 chr4 chr5 chr6 chr7 chr8 chrUn
 
 Org_abr:  Cand_glab_CBS138
 Seq_acc:  NC_004691 NC_005967 NC_005968 NC_006026 NC_006027 NC_006028 NC_006029 NC_006030 NC_006031 NC_006032 NC_006033 NC_006034 NC_006035 NC_006036
 Name_chg: chrMT chrA chrB chrC chrD chrE chrF chrG chrH chrI chrJ chrK chrL chrM 
 
 Org_abr:  Deba_hans_CBS767
 Seq_acc:  NC_006043 NC_006044 NC_006045 NC_006046 NC_006047 NC_006048 NC_006049 NC_010166
 Name_chg: chrA chrB chrC chrD chrE chrF chrG chrMT 
 
 Org_abr:  Erem_goss
 Seq_acc:  NC_005782 NC_005783 NC_005784 NC_005785 NC_005786 NC_005787 NC_005788 NC_005789
 Name_chg: chrI chrII chrIII chrIV chrV chrVI chrVII chrMT 
 
 Org_abr:  Kluy_lact_NRRL_Y-1140
 Seq_acc:  NC_006037 NC_006038 NC_006039 NC_006040 NC_006041 NC_006042 NC_006077
 Name_chg: chrA chrB chrC chrD chrE chrF chrMT 
 
 Org_abr:  Aqui_aeol
 Multiz:   Aquificales hydrSp_128_5R1 hydrY04A sulfYO3A
 Phylo: (((aquiAeol, hydrSp_128_5R1), hydrY04A), sulfYO3A)
 
 Org_abr:  Hydr_Y04A
 SP_ID:    AQUAE 
-Multiz:   Aquificales aquiAeol hydrSp_128_5R1 sulfYO3A
-Phylo: (((aquiAeol, hydrSp_128_5R1), hydrY04A), sulfYO3A)
+Multiz:   Aquificales aquiAeol hydrSp_128_5R1 ospSpri14_050609_1 sulfYO3A
+Phylo: ((((aquiAeol, hydrSp_128_5R1), hydrY04A), ospSpri14_050609_1), sulfYO3A)
 
 Org_abr:  Sulf_YO3A
 SP_ID:    AQUAE 
 Multiz:   Aquificales aquiAeol hydrSp_128_5R1 hydrY04A
 Phylo: (((aquiAeol, hydrSp_128_5R1), hydrY04A), sulfYO3A)
 
 Org_abr:  Hydr_sp_128-5-R1-1
 Menu_name: Hydrogenivirga sp. 128-5-R1-1
 DB_name:  hydrSp_128_5R1
 JGI_ID:   641380441
 SP_ID:    AQUAE
 Rel_date: Dec 2007
 Seq_src:  J. Craig Venter Institute
-Multiz:   Aquificales aquiAeol hydrY04A sulfYO3A
-Phylo: (((aquiAeol, hydrSp_128_5R1), hydrY04A), sulfYO3A)
+Multiz:   Aquificales aquiAeol hydrY04A ospSpri14_050609_1 sulfYO3A
+Phylo: ((((aquiAeol, hydrSp_128_5R1), hydrY04A), ospSpri14_050609_1), sulfYO3A)
 
 Org_abr:  Cand_Desu_audaxviator_MP104C
 DB_name:  desuAuda
 Rel_date: July 2008
 Multiz:   Peptococcaceae peloTher_SI carbHydrZ2901 desuRedu_MI_1
 Phylo:    ((desuAuda,(peloTher_SI,carbHydrZ2901)), desuRedu_MI_1)

