src/hg/archaeStuff/data/Genome-info-mods 1.87
1.87 2009/10/14 03:35:06 pchan
add Public_phylo for halophiles
Index: src/hg/archaeStuff/data/Genome-info-mods
===================================================================
RCS file: /projects/compbio/cvsroot/kent/src/hg/archaeStuff/data/Genome-info-mods,v
retrieving revision 1.86
retrieving revision 1.87
diff -b -B -U 4 -r1.86 -r1.87
--- src/hg/archaeStuff/data/Genome-info-mods 12 Oct 2009 06:56:09 -0000 1.86
+++ src/hg/archaeStuff/data/Genome-info-mods 14 Oct 2009 03:35:06 -0000 1.87
@@ -81,19 +81,21 @@
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: HalophilesPriv natrPhar1 haloWals1 haloUtah1 haloVolc1 natrMaga0 haloHalo1 haloSali1
+Multiz: HalophilesPriv natrPhar1 haloWals1 haloUtah1 haloVolc1_1 natrMaga0 haloHalo1 haloSali1
Public_multiz: Halophiles natrPhar1 haloWals1 haloUtah1 haloVolc1 haloHalo1 haloSali1
-Phylo: ((((((haloHalo1,haloSali1),haloUtah1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1))
+Phylo: ((((((haloHalo1,haloSali1),haloUtah1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1_1))
+Public_phylo: (((((haloHalo1,haloSali1),haloUtah1),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: HalophilesPriv haloSali1 natrMaga0 haloVolc1 natrPhar1 haloWals1 halMar1 haloUtah1
+Multiz: HalophilesPriv haloSali1 natrMaga0 haloVolc1_1 natrPhar1 haloWals1 halMar1 haloUtah1
Public_multiz: Halophiles haloSali1 haloVolc1 natrPhar1 haloWals1 halMar1 haloUtah1
-Phylo: ((((((haloHalo1,haloSali1),haloUtah1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1))
+Phylo: ((((((haloHalo1,haloSali1),haloUtah1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1_1))
+Public_phylo: (((((haloHalo1,haloSali1),haloUtah1),natrPhar1),halMar1),(haloWals1,haloVolc1))
SP_ID: HALSA
Org_abr: Halo_sali_R1
Menu_name: Halobacterium salinarum R1
@@ -101,22 +103,24 @@
Rel_date: Feb 2008
Seq_src: Max Planck Institute
SP_ID: HALSA
Iso_pub:
-Multiz: HalophilesPriv haloHalo1 natrMaga0 haloVolc1 natrPhar1 haloWals1 halMar1 haloUtah1
+Multiz: HalophilesPriv haloHalo1 natrMaga0 haloVolc1_1 natrPhar1 haloWals1 halMar1 haloUtah1
Public_multiz: Halophiles haloHalo1 haloVolc1 natrPhar1 haloWals1 halMar1 haloUtah1
-Phylo: ((((((haloHalo1,haloSali1),haloUtah1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1))
+Phylo: ((((((haloHalo1,haloSali1),haloUtah1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1_1))
+Public_phylo: (((((haloHalo1,haloSali1),haloUtah1),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: HalophilesPriv haloVolc1 halMar1 haloUtah1 natrPhar1 natrMaga0 haloHalo1 haloSali1
+Multiz: HalophilesPriv haloVolc1_1 halMar1 haloUtah1 natrPhar1 natrMaga0 haloHalo1 haloSali1
Public_multiz: Halophiles haloVolc1 halMar1 haloUtah1 natrPhar1 haloHalo1 haloSali1
-Phylo: ((((((haloHalo1,haloSali1),haloUtah1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1))
+Phylo: ((((((haloHalo1,haloSali1),haloUtah1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1_1))
+Public_phylo: (((((haloHalo1,haloSali1),haloUtah1),natrPhar1),halMar1),(haloWals1,haloVolc1))
Org_abr: Halo_volc_DS2
Org_name: Haloferax volcanii DS2
Menu_name: Haloferax volcanii
@@ -140,8 +144,9 @@
Gb_acc: None
Multiz: HalophilesPriv haloWals1 natrPhar1 natrMaga0 haloHalo1 haloSali1 halMar1 haloUtah1
Public_multiz: Halophiles haloWals1 natrPhar1 haloHalo1 haloSali1 halMar1 haloUtah1
Phylo: ((((((haloHalo1,haloSali1),haloUtah1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1))
+Public_phylo: (((((haloHalo1,haloSali1),haloUtah1),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.
@@ -173,8 +178,9 @@
Gb_acc: None
Multiz: HalophilesPriv haloWals1 natrPhar1 natrMaga0 haloHalo1 haloSali1 halMar1 haloUtah1
Public_multiz: Halophiles haloWals1 natrPhar1 haloHalo1 haloSali1 halMar1 haloUtah1
Phylo: ((((((haloHalo1,haloSali1),haloUtah1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1_1))
+Public_phylo: (((((haloHalo1,haloSali1),haloUtah1),natrPhar1),halMar1),(haloWals1,haloVolc1_1))
Pub_id:
Rel_date: 1 Oct 2009
Seq_src: Halolex
Sp_info: The genome is complete and being publicly released by Jonathan Eisen before journal publication while genome annotation is provided through Halolex. <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.
@@ -188,20 +194,22 @@
DB_name: haloUtah1
Name_chg: chr
Iso_pub: 10826803
Rel_date: April 2009
-Multiz: HalophilesPriv haloWals1 natrPhar1 natrMaga0 haloHalo1 haloSali1 halMar1
-Public_multiz: Halophiles haloWals1 natrPhar1 haloHalo1 haloSali1 halMar1
-Phylo: ((((((haloHalo1,haloSali1),haloUtah1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1))
+Multiz: HalophilesPriv haloWals1 natrPhar1 natrMaga0 haloHalo1 haloSali1 haloVolc1_1 halMar1
+Public_multiz: Halophiles haloWals1 natrPhar1 haloHalo1 haloSali1 haloVolc1 halMar1
+Phylo: ((((((haloHalo1,haloSali1),haloUtah1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1_1))
+Public_phylo: (((((haloHalo1,haloSali1),haloUtah1),natrPhar1),halMar1),(haloWals1,haloVolc1))
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: HalophilesPriv haloWals1 haloHalo1 natrMaga0 haloSali1 haloVolc1 halMar1 haloUtah1
+Multiz: HalophilesPriv haloWals1 haloHalo1 natrMaga0 haloSali1 haloVolc1_1 halMar1 haloUtah1
Public_multiz: Halophiles haloWals1 haloHalo1 haloSali1 haloVolc1 halMar1 haloUtah1
-Phylo: ((((((haloHalo1,haloSali1),haloUtah1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1))
+Phylo: ((((((haloHalo1,haloSali1),haloUtah1),natrMaga0),natrPhar1),halMar1),(haloWals1,haloVolc1_1))
+Public_phylo: (((((haloHalo1,haloSali1),haloUtah1),natrPhar1),halMar1),(haloWals1,haloVolc1))
Org_abr: Meth_jann
DB_name: methJann1
Iso_pub: http://www.springerlink.com/content/u8774k126821777x/