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Title: Comparison of the complete genome sequences of Pseudomonas syringae pv. syringae B728a and pv. tomato DC3000

Abstract

The complete genomic sequence of Pseudomonas syringae pathovar syringae B728a (Pss B728a), has been determined and is compared with that of Pseudomonas syringae pv. tomato DC3000 (Pst DC3000). The two pathovars of this economically important species of plant pathogenic bacteria differ in host range and other interactions with plants, with Pss having a more pronounced epiphytic stage of growth and higher abiotic stress tolerance and Pst DC3000 having a more pronounced apoplastic growth habitat. The Pss B728a genome (6.1 megabases) contains a circular chromosome and no plasmid, whereas the Pst DC3000 genome is 6.5 mbp in size, composed of a circular chromosome and two plasmids. While a high degree of similarity exists between the two sequenced Pseudomonads, 976 protein-encoding genes are unique to Pss B728a when compared to Pst DC3000, including large genomic islands likely to contribute to virulence and host specificity. Over 375 repetitive extragenic palindromic sequences (REPs) unique to Pss B728a when compared to Pst DC3000 are widely distributed throughout the chromosome except in 14 genomic islands, which generally had lower GC content than the genome as a whole. Content of the genomic islands vary, with one containing a prophage and another the plasmid pKLC102 of P. aeruginosamore » PAO1. Among the 976 genes of Pss B728a with no counterpart in Pst DC3000 are those encoding for syringopeptin (SP), syringomycin (SR), indole acetic acid biosynthesis, arginine degradation, and production of ice nuclei. The genomic comparison suggests that several unique genes for Pss B728a such as ectoine synthase, DNA repair, and antibiotic production may contribute to epiphytic fitness and stress tolerance of this organism.« less

Authors:
; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
Publication Date:
Research Org.:
Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)
Sponsoring Org.:
USDOE
OSTI Identifier:
875654
Report Number(s):
UCRL-JRNL-213733
Journal ID: ISSN 0027-8424; PNASA6; TRN: US200603%%175
DOE Contract Number:  
W-7405-ENG-48
Resource Type:
Journal Article
Journal Name:
Proceedings of the National Academy of Sciences of the United States of America
Additional Journal Information:
Journal Volume: 102; Journal Issue: 31; Journal ID: ISSN 0027-8424
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; 60 APPLIED LIFE SCIENCES; ACETIC ACID; ANTIBIOTICS; ARGININE; BACTERIA; BIOSYNTHESIS; CHROMOSOMES; DNA REPAIR; GENES; HABITAT; INDOLES; NUCLEI; PLASMIDS; PSEUDOMONAS; SPECIFICITY; TOLERANCE; VIRULENCE

Citation Formats

Feil, H, Feil, W S, Chain, P, Larimer, F, DiBartolo, G, Copeland, A, Lykidis, A, Trong, S, Nolan, M, Goltsman, E, Thiel, J, Malfatti, S, Loper, J E, Lapidus, A, Detter, J C, Land, M, Richardson, P M, Kyrpides, N C, Ivanova, N, and Lindow, S E. Comparison of the complete genome sequences of Pseudomonas syringae pv. syringae B728a and pv. tomato DC3000. United States: N. p., 2005. Web. doi:10.1073/pnas.0504930102.
Feil, H, Feil, W S, Chain, P, Larimer, F, DiBartolo, G, Copeland, A, Lykidis, A, Trong, S, Nolan, M, Goltsman, E, Thiel, J, Malfatti, S, Loper, J E, Lapidus, A, Detter, J C, Land, M, Richardson, P M, Kyrpides, N C, Ivanova, N, & Lindow, S E. Comparison of the complete genome sequences of Pseudomonas syringae pv. syringae B728a and pv. tomato DC3000. United States. doi:10.1073/pnas.0504930102.
Feil, H, Feil, W S, Chain, P, Larimer, F, DiBartolo, G, Copeland, A, Lykidis, A, Trong, S, Nolan, M, Goltsman, E, Thiel, J, Malfatti, S, Loper, J E, Lapidus, A, Detter, J C, Land, M, Richardson, P M, Kyrpides, N C, Ivanova, N, and Lindow, S E. Thu . "Comparison of the complete genome sequences of Pseudomonas syringae pv. syringae B728a and pv. tomato DC3000". United States. doi:10.1073/pnas.0504930102. https://www.osti.gov/servlets/purl/875654.
@article{osti_875654,
title = {Comparison of the complete genome sequences of Pseudomonas syringae pv. syringae B728a and pv. tomato DC3000},
author = {Feil, H and Feil, W S and Chain, P and Larimer, F and DiBartolo, G and Copeland, A and Lykidis, A and Trong, S and Nolan, M and Goltsman, E and Thiel, J and Malfatti, S and Loper, J E and Lapidus, A and Detter, J C and Land, M and Richardson, P M and Kyrpides, N C and Ivanova, N and Lindow, S E},
abstractNote = {The complete genomic sequence of Pseudomonas syringae pathovar syringae B728a (Pss B728a), has been determined and is compared with that of Pseudomonas syringae pv. tomato DC3000 (Pst DC3000). The two pathovars of this economically important species of plant pathogenic bacteria differ in host range and other interactions with plants, with Pss having a more pronounced epiphytic stage of growth and higher abiotic stress tolerance and Pst DC3000 having a more pronounced apoplastic growth habitat. The Pss B728a genome (6.1 megabases) contains a circular chromosome and no plasmid, whereas the Pst DC3000 genome is 6.5 mbp in size, composed of a circular chromosome and two plasmids. While a high degree of similarity exists between the two sequenced Pseudomonads, 976 protein-encoding genes are unique to Pss B728a when compared to Pst DC3000, including large genomic islands likely to contribute to virulence and host specificity. Over 375 repetitive extragenic palindromic sequences (REPs) unique to Pss B728a when compared to Pst DC3000 are widely distributed throughout the chromosome except in 14 genomic islands, which generally had lower GC content than the genome as a whole. Content of the genomic islands vary, with one containing a prophage and another the plasmid pKLC102 of P. aeruginosa PAO1. Among the 976 genes of Pss B728a with no counterpart in Pst DC3000 are those encoding for syringopeptin (SP), syringomycin (SR), indole acetic acid biosynthesis, arginine degradation, and production of ice nuclei. The genomic comparison suggests that several unique genes for Pss B728a such as ectoine synthase, DNA repair, and antibiotic production may contribute to epiphytic fitness and stress tolerance of this organism.},
doi = {10.1073/pnas.0504930102},
journal = {Proceedings of the National Academy of Sciences of the United States of America},
issn = {0027-8424},
number = 31,
volume = 102,
place = {United States},
year = {2005},
month = {7}
}

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