scholarly journals Peer Review #2 of "Complete genome sequence and comparative genomics of the golden pompano (Trachinotus ovatus) pathogen, Vibrio harveyi strain QT520 (v0.1)"

2017 ◽  
Keyword(s):  
Comparative Genomics ◽  
Peer Review ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Vibrio Harveyi ◽  
Trachinotus Ovatus ◽  
Golden Pompano

scholarly journals Complete genome sequence and comparative genomics of the golden pompano (Trachinotus ovatus) pathogen, Vibrio harveyi strain QT520

PeerJ ◽  
2017 ◽  
Vol 5 ◽  
pp. e4127 ◽  
Author(s):  
Zhigang Tu ◽  
Hongyue Li ◽  
Xiang Zhang ◽  
Yun Sun ◽  
Yongcan Zhou
Keyword(s):  
Virulence Factors ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Vibrio Harveyi ◽  
Virulent Strain ◽  
Gc Content ◽  
Halophilic Bacterium ◽  
Secretion Systems ◽  
Genetic Characteristics

Vibrio harveyi is a Gram-negative, halophilic bacterium that is an opportunistic pathogen of commercially farmed marine vertebrate species. To understand the pathogenicity of this species, the genome of V. harveyi QT520 was analyzed and compared to that of other strains. The results showed the genome of QT520 has two unique circular chromosomes and three endogenous plasmids, totaling 6,070,846 bp with a 45% GC content, 5,701 predicted ORFs, 134 tRNAs and 37 rRNAs. Common virulence factors, including ACF, IlpA, OmpU, Flagellin, Cya, Hemolysin and MARTX, were detected in the genome, which are likely responsible for the virulence of QT520. The results of genomes comparisons with strains ATCC 33843 (392 (MAV)) and ATCC 43516 showed that greater numbers genes associated with types I, II, III, IV and VI secretion systems were detected in QT520 than in other strains, suggesting that QT520 is a highly virulent strain. In addition, three plasmids were only observed in the complete genome sequence of strain QT520. In plasmid p1 of QT520, specific virulence factors (cyaB, hlyB and rtxA) were identified, suggesting that the pathogenicity of this strain is plasmid-associated. Phylogenetic analysis of 12 complete Vibrio sp. genomes using ANI values, core genes and MLST revealed that QT520 was most closely related to ATCC 33843 (392 (MAV)) and ATCC 43516, suggesting that QT520 belongs to the species V. harveyi. This report is the first to describe the complete genome sequence of a V. harveyi strain isolated from an outbreak in a fish species in China. In addition, to the best of our knowledge, this report is the first to compare the V. harveyi genomes of several strains. The results of this study will expand our understanding of the genome, genetic characteristics, and virulence factors of V. harveyi, setting the stage for studies of pathogenesis, diagnostics, and disease prevention.

scholarly journals Complete Genome Sequence of Sponge-Associated Tenacibaculum mesophilum DSM 13764T

2019 ◽  
Vol 8 (48) ◽  
Author(s):  
Sou Miyake ◽  
Melissa Soh ◽  
Yichen Ding ◽  
Henning Seedorf
Keyword(s):  
Comparative Genomics ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Disease Outbreaks ◽  
Close Relative ◽  
Fish Disease ◽  
Fish Pathogen ◽  
Content Type ◽  
Aquaculture Facilities

Here, the complete genome sequence of sponge-associated Tenacibaculum mesophilum DSM 13764T is presented. T. mesophilum is a close relative of the fish pathogen T. maritimum, which causes significant fish disease outbreaks in aquaculture facilities. The T. mesophilum genome sequence will serve as an important resource for comparative genomics approaches.

scholarly journals Complete Genome Sequence of Xanthomonas campestris pv. viticola Strain CCRMXCV 80 from Brazil

2017 ◽  
Vol 5 (46) ◽  
Author(s):  
Nelson B. Lima ◽  
Marco A. S. Gama ◽  
Rosa L. R. Mariano ◽  
Wilson J. Silva ◽  
Antônio R. G. Farias ◽  
...  
Keyword(s):  
Comparative Genomics ◽  
Vitis Vinifera ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Xanthomonas Campestris ◽  
Plant Protection ◽  
Bacterial Canker ◽  
Content Type ◽  
Genome Data

ABSTRACT Here, we report the complete 5.3-Mb genome sequence of Xanthomonas campestris pv. viticola (CCRMXCV 80), which causes grapevine (Vitis vinifera L.) bacterial canker. Genome data will improve our understanding of the strain’s comparative genomics and epidemiology, and help to further define plant protection and quarantine procedures.

scholarly journals Complete Genome Sequence and Comparative Genomics of Shigella flexneri Serotype 2a Strain 2457T

2003 ◽  
Vol 71 (7) ◽  
pp. 4223-4223 ◽  
Author(s):  
J. Wei ◽  
M. B. Goldberg ◽  
V. Burland ◽  
M. M. Venkatesan ◽  
W. Deng ◽  
...  
Keyword(s):  
Comparative Genomics ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Shigella Flexneri

scholarly journals Complete Genome Sequence of the Fire Blight Pathogen Erwinia amylovora CFBP 1430 and Comparison to Other Erwinia spp.

2010 ◽  
Vol 23 (4) ◽  
pp. 384-393 ◽  
Author(s):  
Theo H. M. Smits ◽  
Fabio Rezzonico ◽  
Tim Kamber ◽  
Jochen Blom ◽  
Alexander Goesmann ◽  
...  
Keyword(s):  
Comparative Genomics ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Fire Blight ◽  
Erwinia Amylovora ◽  
Control Strategies ◽  
Economic Importance ◽  
Secretion Systems ◽  
Evolutionary Aspects

Fire blight, caused by the enterobacterium Erwinia amylovora, is a devastating disease of rosaceous plants that has global economic importance for apple and pear production and trade. The complete genome of E. amylovora CFBP 1430 was sequenced, annotated, and compared with the genomes of other Erwinia spp. Several singleton and shared features of the E. amylovora CFBP 1430 genome were identified that offer a first view into evolutionary aspects within the genus Erwinia. Comparative genomics identified or clarified virulence and fitness determinants and secretion systems. Novel insights revealed in the genome of E. amylovora CFBP 1430 hold potential for exploitation to improve the design of more effective fire blight control strategies.

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