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Functional and taxonomic classification of a greenhouse water drain metagenome

Authors
  • López-Leal, Gamaliel1
  • Cornejo-Granados, Fernanda1
  • Hurtado-Ramírez, Juan Manuel1
  • Mendoza-Vargas, Alfredo2
  • Ochoa-Leyva, Adrian1
  • 1 Universidad Nacional Autónoma de México, Departamento de Microbiología Molecular, Instituto de Biotecnología, Avenida Universidad 2001, Colonia Chamilpa, Cuernavaca, Morelos, 62210, Mexico , Cuernavaca (Mexico)
  • 2 Instituto Nacional de Medicina Genómica, Secretaría de Salud, Periférico Sur No. 4809, Col. Arenal Tepepan, Delegación Tlalpan, Ciudad de México, 14610, Mexico , Ciudad de México (Mexico)
Type
Published Article
Journal
Standards in Genomic Sciences
Publisher
Springer (Biomed Central Ltd.)
Publication Date
Oct 05, 2018
Volume
13
Issue
1
Identifiers
DOI: 10.1186/s40793-018-0326-y
Source
Springer Nature
Keywords
License
Green

Abstract

Microbiome sequencing has become the standard procedure in the study of new ecological and human-constructed niches. To our knowledge, this is the first report of a metagenome from the water of a greenhouse drain. We found that the greenhouse is not a diverse niche, mainly dominated by Rhizobiales and Rodobacterales. The analysis of the functions encoded in the metagenome showed enrichment of characteristic features of soil and root-associated bacteria such as ABC-transporters and hydrolase enzymes. Additionally, we found antibiotic resistances genes principally for spectinomycin, tetracycline, and aminoglycosides. This study aimed to identify the bacteria and functional gene composition of a greenhouse water drain sample and also provide a genomic resource to search novel proteins from a previously unexplored niche. All the metagenome proteins and their annotations are available to the scientific community via http://microbiomics.ibt.unam.mx/tools/metagreenhouse/.

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