Journal ArticleDOI
Pectobacterium zantedeschiae sp. nov. a new species of a soft rot pathogen isolated from Calla lily (Zantedeschia spp.).
Malgorzata Waleron,Agnieszka Misztak,Michal Waleron,Martyna Franczuk,Joanna Jońca,Bartosz Wielgomas,Artur Mikiciński,Tatjana Popović,Krzysztof Waleron +8 more
TLDR
The genome sequencing of the strains 2M, 9M and DPMP600 and their comparison with whole genome sequences of other Pectobacterium type strains confirmed their distinctiveness and separate species status within the genus based on parameters of in silico DNA-DNA hybridization and average nucleotide identity (ANI) values.About:
This article is published in Systematic and Applied Microbiology.The article was published on 2019-05-01. It has received 36 citations till now. The article focuses on the topics: Pectobacterium & Pectobacterium wasabiae.read more
Citations
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SPAdes, a new genome assembly algorithm and its applications to single-cell sequencing ( 7th Annual SFAF Meeting, 2012)
TL;DR: SPAdes as mentioned in this paper is a new assembler for both single-cell and standard (multicell) assembly, and demonstrate that it improves on the recently released E+V-SC assembler and on popular assemblers Velvet and SoapDeNovo (for multicell data).
Journal ArticleDOI
Elevation of Pectobacterium carotovorum subsp. odoriferum to species level as Pectobacterium odoriferum sp. nov., proposal of Pectobacterium brasiliense sp. nov. and Pectobacterium actinidiae sp. nov., emended description of Pectobacterium carotovorum and description of Pectobacterium versatile sp. nov., isolated from streams and symptoms on diverse plants.
Perrine Portier,Jacques Pédron,Géraldine Taghouti,Marion Fischer-Le Saux,Emma Caullireau,Claire Bertrand,Angélique Laurent,Khaoula Chawki,Saïd Oulgazi,Mohedine Moumni,Didier Andrivon,Cécile Dutrieux,Denis Faure,Valérie Hélias,Marie-Anne Barny +14 more
TL;DR: The taxonomic status of 144 Pectobacterium strains isolated from a wide range of plant species, various geographical origins and waterways is examined and the elevation of P. odoriferum to species level as PectOBacteriumodoriferum sp.
Journal ArticleDOI
Pectobacterium aquaticum sp. nov., isolated from waterways.
TL;DR: This work aimed to establish the taxonomic status of six strains isolated from three different waterways in 2015 and 2016 in south-east France, and suggested a novel species of the genus Pectobacterium sp.
Journal ArticleDOI
Transfer of the waterfall source isolate Pectobacterium carotovorum M022 to Pectobacterium fontis sp. nov., a deep-branching species within the genus Pectobacterium.
TL;DR: By combining genomic and phenotypic tests, strain M022T may be distinguished from the other Pectobacterium isolates by its incapacity to grow on d(+)-xylose, l-rhamnose, cellobiose and lactose.
Journal ArticleDOI
Pectobacterium polonicum sp. nov. isolated from vegetable fields
Malgorzata Waleron,Agnieszka Misztak,Michal Waleron,Joanna Jońca,Magda Furmaniak,Krzysztof Waleron +5 more
TL;DR: The phenotypic comparisons, fatty acid methyl esters compositions, genetic rep PCR fingerprint and detailed whole-cell MALDI-TOF mass spectrometry proteomic profiles permitted the differentiation of Polish strains from the type strains of all other known species of the genus Pectobacterium.
References
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Journal ArticleDOI
MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0
TL;DR: An advanced version of the Molecular Evolutionary Genetics Analysis software, which currently contains facilities for building sequence alignments, inferring phylogenetic histories, and conducting molecular evolutionary analysis, is released, which enables the inference of timetrees, as it implements the RelTime method for estimating divergence times for all branching points in a phylogeny.
Brief Communication MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0
TL;DR: The Molecular Evolutionary Genetics Analysis (MEGA) software as discussed by the authors provides facilities for building sequence alignments, inferring phylogenetic histories, and conducting molecular evolutionary analysis, including the inference of timetrees.
Journal ArticleDOI
SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing
Anton Bankevich,Sergey Nurk,Dmitry Antipov,Alexey Gurevich,Mikhail Dvorkin,Alexander S. Kulikov,Valery M. Lesin,Sergey I. Nikolenko,Son Pham,Andrey D. Prjibelski,Alexey V. Pyshkin,Alexander Sirotkin,Nikolay Vyahhi,Glenn Tesler,Max A. Alekseyev,Pavel A. Pevzner +15 more
TL;DR: SPAdes generates single-cell assemblies, providing information about genomes of uncultivatable bacteria that vastly exceeds what may be obtained via traditional metagenomics studies.
Journal ArticleDOI
Geneious Basic
Matthew Kearse,Richard Moir,Amy Wilson,Steven Stones-Havas,Matthew Cheung,Shane Sturrock,Simon Buxton,Alex Cooper,Sidney Markowitz,Chris Duran,Tobias Thierer,Bruce Ashton,Peter Meintjes,Alexei J. Drummond +13 more
TL;DR: Geneious Basic has been designed to be an easy-to-use and flexible desktop software application framework for the organization and analysis of biological data, with a focus on molecular sequences and related data types.
Journal ArticleDOI
16S ribosomal DNA amplification for phylogenetic study.
TL;DR: A set of oligonucleotide primers capable of initiating enzymatic amplification (polymerase chain reaction) on a phylogenetically and taxonomically wide range of bacteria is described in this paper.