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      Draft genome sequence of Bacillus velezensis 2A-2B strain: a rhizospheric inhabitant of Sporobolus airoides (Torr.) Torr ., with antifungal activity against root rot causing phytopathogens

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          Abstract

          A Bacillus velezensis strain from the rhizosphere of Sporobolus airoides (Torr.) Torr ., a grass in central-north México, was isolated during a biocontrol of phytopathogens scrutiny study. The 2A-2B strain exhibited at least 60% of growth inhibition of virulent isolates of phytopathogens causing root rot. These phytopathogens include Phytophthora capsici, Fusarium solani, Fusarium oxysporum and Rhizoctonia solani. Furthermore, the 2A-2B strain is an indolacetic acid producer, and a plant inducer of PR1, which is an induced systemic resistance related gene in chili pepper plantlets. Whole genome sequencing was performed to generate a draft genome assembly of 3.953 MB with 46.36% of GC content, and a N50 of 294,737. The genome contains 3713 protein coding genes and 89 RNA genes. Moreover, comparative genome analysis revealed that the 2A-2B strain had the greatest identity (98.4%) with Bacillus velezensis.

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          Gene Ontology: tool for the unification of biology

          Michael Ashburner, Catherine A. Ball, Judith Blake … (2002)
          Genomic sequencing has made it clear that a large fraction of the genes specifying the core biological functions are shared by all eukaryotes. Knowledge of the biological role of such shared proteins in one organism can often be transferred to other organisms. The goal of the Gene Ontology Consortium is to produce a dynamic, controlled vocabulary that can be applied to all eukaryotes even as knowledge of gene and protein roles in cells is accumulating and changing. To this end, three independent ontologies accessible on the World-Wide Web (http://www.geneontology.org) are being constructed: biological process, molecular function and cellular component.
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            Regulation and function of root exudates

            DAYAKAR BADRI, JORGE M. VIVANCO (2009)
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              Toward an online repository of Standard Operating Procedures (SOPs) for (meta)genomic annotation.

              Samuel V. Angiuoli, Aaron Gussman, William Klimke … (2008)
              The methodologies used to generate genome and metagenome annotations are diverse and vary between groups and laboratories. Descriptions of the annotation process are helpful in interpreting genome annotation data. Some groups have produced Standard Operating Procedures (SOPs) that describe the annotation process, but standards are lacking for structure and content of these descriptions. In addition, there is no central repository to store and disseminate procedures and protocols for genome annotation. We highlight the importance of SOPs for genome annotation and endorse an online repository of SOPs.
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                Author and article information

                Contributors
                Saúl Fraire-Velázquez:
                ORCID: http://orcid.org/0000-0003-2949-1678
                +52 492 9230071 , sfraire@uaz.edu.mx
                Journal
                Journal ID (nlm-ta): Stand Genomic Sci
                Journal ID (iso-abbrev): Stand Genomic Sci
                Title: Standards in Genomic Sciences
                Publisher: BioMed Central (London )
                ISSN (Electronic): 1944-3277
                Publication date (Electronic): 5 December 2017
                Publication date PMC-release: 5 December 2017
                Publication date Collection: 2017
                Volume: 12
                Electronic Location Identifier: 73
                Affiliations
                [1 ]ISNI 0000 0001 2105 1788, GRID grid.412865.c, Laboratorio Biología Integrativa de Plantas y Microorganismos, Unidad Académica de Ciencias Biológicas, Universidad Autónoma de Zacatecas, Av. Preparatoria s/n, Col. Agronómica, ; Zac. CP, -98067 Zacatecas, Mexico
                [2 ]ISNI 0000 0001 2159 0001, GRID grid.9486.3, ENES-León, Universidad Nacional Autónoma de México, ; Mexico City, Mexico
                Author information
                http://orcid.org/0000-0003-2949-1678
                Article
                Publisher ID: 289
                DOI: 10.1186/s40793-017-0289-4
                PMC ID: 5717847
                PubMed ID: 29225729
                SO-VID: 6193fe92-da8f-4d62-a53c-26deeb6a6540
                Copyright © © The Author(s). 2017
                License:

                Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License ( http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver ( http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

                History
                Date received : 24 March 2017
                Date accepted : 24 November 2017
                Funding
                Funded by: discount code SGREP
                Award ID: SGREP
                Categories
                Subject: Extended Genome Report
                Custom metadata
                issue-copyright-statement © The Author(s) 2017

                ScienceOpen disciplines: Genetics
                Keywords: chile wilt biocontrol,phytophthora capsici,fungal inhibition,root rot biocontrol,bacterial biocontrol agent,capsicum annuum l
                Data availability:
                ScienceOpen disciplines: Genetics
                Keywords: chile wilt biocontrol, phytophthora capsici, fungal inhibition, root rot biocontrol, bacterial biocontrol agent, capsicum annuum l

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