Updates to the Psy B728a chromosome sequence and annotation:

  Locus Date: Nature of change Source
53
Psyr_4233

12-22-08: New product name/note
Product name changed to "PhcA". Note added: "see PMID:18363647"

M. Lindeberg.
Cornell University
52
  12-8-06: 66 promoter features added (view list of promoters in tabular form)
promoter
/experiment="microarray and/or RT-PCR"
/note="hrp box; putative HrpL-dependent promoter; location identified by hidden Markov model and/or weight matrix scans; (PMID 17073298)”

Chris Myers,
USDA-ARS;
M. Lindeberg.
Cornell University

51
Psyr_1187 12-8-06: Nomenclature
Product name changed from "Type III chaperone protein AvrF " to "Type III chaperone protein ShcE "
M. Lindeberg.
Cornell University
50
Psyr_0464

8-16-06: Nomenclature
Product name changed from "hopAH2PsyB728a" to "hypothetical protein"

M. Lindeberg.
Cornell University
49
Psyr_0465

8-16-06: Nomenclature
Product name changed from "type III effector HopAP1" to" type III effector HopAN1"

M. Lindeberg.
Cornell University
48
Psyr_1192

8-8-06: Nomenclature
Product name changed from "type III helper protein HrpA1" to "type III helper protein HrpA2" based on phylogenetic analysis of multiple HrpA sequences

M. Lindeberg.
Cornell University
47
Psyr_1185 5-19-06: Nomenclature
Product name changed to "Type III chaperone protein ShcM"
M. Lindeberg
Cornell University
46
Psyr_1187 5-19-06: Nomenclature
Product name changed to "Type III chaperone protein AvrF"
M. Lindeberg
Cornell University
45
Psyr_1190 5-06: Nomenclature
Product name changed from "Helix-turn-helix, Fis-type" to "type III transcriptional regulator HrpR"
M. Lindeberg
Cornell University
44
Psyr_1191 5-06: Nomenclature
Product name changed from "Helix-turn-helix, Fis-type" to "type III transcriptional regulator HrpS"
M. Lindeberg
Cornell University
43
Psyr_1192 5-06: Nomenclature
Product name changed from "hypothetical protein" to "type III helper protein HrpA1"
M. Lindeberg
Cornell University
42
Psyr_1194 5-06: Nomenclature
Product name changed from "type III secretion protein HrpB(Pto)" to "type III secretion protein HrpB"
M. Lindeberg
Cornell University
41
Psyr_1195 5-06: Nomenclature
Product name changed from "hypothetical protein" to "type III secretion protein HrcJ"
M. Lindeberg
Cornell University
40
Psyr_1197 5-06: Nomenclature
Product name changed from "HrpE" to "type III secretion protein HrpE"
M. Lindeberg
Cornell University
39
Psyr_1198 5-06: Nomenclature
Product name changed from "HrpF" to "type III secretion protein HrpF"
M. Lindeberg
Cornell University
38
Psyr_1200 5-06: Nomenclature
Product name changed from "type II and III secretion system protein:NolW-like" to "outer-membrane type III secretion protein HrcC"
M. Lindeberg
Cornell University
37
Psyr_1205 5-06: Nomenclature
Product name changed from "Type III secretion protein HrpY/HrcU"" to "type III secretion protein HrcU"
M. Lindeberg
Cornell University
36
Psyr_1206 5-06: Nomenclature
Product name changed from "Type III secretion protein SpaR/YscT" to "type III secretion protein HrcT"
M. Lindeberg
Cornell University
35
Psyr_1207 5-06: Nomenclature
Product name changed from "Type III secretion protein HrpO" to "type III secretion protein HrcS"
M. Lindeberg
Cornell University
34
Psyr_1208 5-06: Nomenclature
Product name changed from "Yop virulence translocation protein R" to "type III secretion protein HrcR"
M. Lindeberg
Cornell University
33
Psyr_1209 5-06: Nomenclature
Product name changed from "Surface presentation of antigens (SPOA) protein" to "type III secretion protein HrcQb"
M. Lindeberg
Cornell University
32
Psyr_1213 5-06: Nomenclature
Product name changed from "ATPase FliI/YscN" to "type III secretion cytoplasmic ATPase HrcN"
M. Lindeberg
Cornell University
31
Psyr_1219 5-06: Nomenclature
Product name changed from "avirulence protein AvrB3" to "type III effector protein AvrB3"
M. Lindeberg
Cornell University
30
Psyr_4919 5-06: Nomenclature
Product name changed from "avirulence protein AvrPto1" to "type III effector protein AvrPto1"
M. Lindeberg
Cornell University
29
Psyr_0738 5-06: Nomenclature
Product name changed from "avirulence protein AvrRpm1" to "type III effector protein AvrRpm1"
M. Lindeberg
Cornell University
28
Psyr_1188 5-06: Nomenclature
Product name changed from "avirulence protein AvrE1" to "type III effector protein AvrE1"
M. Lindeberg
Cornell University
27
Psyr_0738

10-05: Nomenclature
Product name changed from "hypothetical protein" to "avirulence protein AvrRpm1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University

26
Psyr_1219

10-05: Nomenclature
Product name changed from "Avirulence" to "avirulence protein AvrB3". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University

25
Psyr_1188

10-05: Nomenclature
Product name changed from "avirulence protein AvrE(Pto)" to "avirulence protein AvrE1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University

24
Psyr_4919

10-05: Nomenclature
Product name changed from "Avirulence protein AvrPro" to "avirulence protein AvrPto1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
23
Psyr_1889

10-05: Nomenclature
Product name changed from "type III effector HopPtoH" to "type III effector HopH1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
22
Psyr_4326

10-05: Nomenclature
Product name changed from "Heat shock protein DnaJ, N-terminal" to "type III effector HopI1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
21
Psyr_1017

10-05: Nomenclature and coordinates
Coordinates changes from: "complement(1150934..1151275)" to "complement(1150934..1151386)". Product name changed from "hypothetical protein" to "type III effector HopJ1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University

20
Psyr_2631

10-05: Nomenclature
Product name changed from "type III effector HopPtoL" to "type III effector HopL1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
19
Psyr_1186

10-05: Nomenclature
Product name changed from "type III effector HopPtoM" to "type III effector HopM1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
18
Psyr_1220

10-05: Nomenclature
Product name changed from "hypothetical protein" to "type III effector HopX1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
17
Psyr_1224

10-05: Nomenclature
Product name changed from "Peptidase C55" to "type III effector HopZ3". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
16
Psyr_1183

10-05: Nomenclature
Product name changed from "type III effector HopPtoA1" to "type III effector HopAA1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
15
Psyr_4659

10-05: Nomenclature
Product name changed from "avirulence protein AvrPtoB" to "type III effector HopAB1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
14
Psyr_0527

10-05: Nomenclature
Product name changed from "hypothetical protein" to "type III effector HopAC1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
13
Psyr_4269

10-05: Nomenclature
Product name changed from "hypothetical protein" to "type III effector HopAE1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
12
Psyr_3813

10-05: Nomenclature
Product name changed from "type III effector HopPtoJ" to "type III effector HopAF1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
11
Psyr_0779

10-05: Nomenclature
Product name changed from "glycosyl hydrolase, family 5" to "type III effector HopAH1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
10
Psyr_3123

10-05: Nomenclature
Product name changed from "hypothetical protein" to "type III effector HopAH2". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
9
Psyr_4357

10-05: Nomenclature
Product name changed from "transglycosylase, putative" to "type III effector HopAJ2". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
8
Psyr_3839

10-05: Nomenclature
Product name changed from "Pectate lyase/Amb allergen" to "type III effector HopAK1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
7
Psyr_1890

10-05: Nomenclature
Product name changed from "hypothetical protein" to "type III effector HopAP1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
6
Psyr_1218

10-05: Nomenclature
Product name changed from "type III helper protein HrpK(Pto)" to "type III helper protein HrpK1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
5
Psyr_1184

10-05: Nomenclature
Product name changed from "Pectate lyase" to "type III helper protein HrpW1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
4
Psyr_1193

10-05: Nomenclature
Product name changed from "HrpZ" to "type III helper protein HrpZ1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
3
Psyr_0465

10-05: Nomenclature
Product name changed from "Type III effector Hrp-dependent outers" to "type III effector HopAP1". Reference (PMID: 15828679)

B. Vinatzer,
Virginia Tech;
M. Lindeberg,
Cornell University
2
Psyr_0778

10-05: Nomenclature and coordinates
Coordinates changed from: "883365..885473" to "883323..885473". Product name changed from "NUDIX hydrolase" to "type III effector HopAG1". Reference (PMID: 15828679)

59B. Vinatzer,
Virginia Tech;58
M. Lindeberg,
Cornell University57
1
Psyr_0780

10-05: Nomenclature and coordinates
Coordinates changed from: "887086..887829" to "887027..887829". Product name: "virulence protein, putative" removed. Note added: "similar to Pseudomonas syringae tomato virulence protein HopAI1; this region is disrupted by a frameshift between 887086 and 887089"Reference (PMID: 15828679)

56B. Vinatzer,
Virginia Tech;55
M. Lindeberg,
Cornell University54