A metagenomic approach in the evaluation of the soil microbiome in coffee plantations under organic and conventional production in tropical agroecosystems
Por:
Cabrera-Rodriguez, Alejandra, Trejo-Calzada, Ricardo, Garcia-De la Pena, Cristina, Arreola-Avila, Jesus G., Nava-Reyna, Erika, Vaca-Paniagua, Felipe, Diaz-Velasquez, Clara, Meza-Herrera, Cesar A.
Publicada:
1 abr 2020
Resumen:
The aim of this study was to determine the soil microbiome throughout
mass sequencing in coffee plantations managed with either an organic
(OAM; i.e., bio-fertilizers Azospirillum brasi/ense and Glomus
intraradices) or a conventional (CAM; i.e., traditional
NPK-fertilization) agronomic systems. Soil microbiome samples were
collected in tropical eastern Mexico (Veracruz, 19 degrees 28' N & 96
degrees 52' W), with annual average temperature and rainfall of 24.8
degrees C, and 882.6 mm, respectively. Upon DNA soil-microbiome
extraction, the V3-V4 16S rRNA region was amplified, and sequenced
(Illumine). Results were analyzed with QIIME based on the EzBioCloud
reference. Diverse phyla (n = 16), classes (n = 40), orders (n = 90),
families (n = 135) and genera (n = 333) were identified. The diversity
index values were similar in both treatments, with Shannon's being 9.7
and Simpson's 0.99. While the phylum Proteobacteria was more abundant in
CAM-soils and classified as copiotrophic, the phylum Acidobacteria was
more abundant in OAM-soils and classified as oligotrophic. This
classification may be related to the application of microorganisms and
their effect on the soil `s state of organic matter and carbon
fractions. Our research outcomes indicate that the application of
bio-fertilizers promoted an increased presence of Acidobacteria, a
phylum positively correlated with organic matter while significantly
involved in carbon sequestration. Undisputable, metagenomics emerges as
an interesting up-to-date genomic technology for unveiling the hidden
content of the soil microbiome black box.
Filiaciones:
Cabrera-Rodriguez, Alejandra:
Univ Autonoma Chapingo URUZA, Carretera Gomez Palacio Ciudad Juarez Km 40 S-N, Durango 35230, Mexico
Trejo-Calzada, Ricardo:
Univ Autonoma Chapingo URUZA, Carretera Gomez Palacio Ciudad Juarez Km 40 S-N, Durango 35230, Mexico
Garcia-De la Pena, Cristina:
Univ Juarez Estado Durango, Fac Ciencias Biol, Av Univ S-N, Durango 35010, Mexico
Arreola-Avila, Jesus G.:
Univ Autonoma Chapingo URUZA, Carretera Gomez Palacio Ciudad Juarez Km 40 S-N, Durango 35230, Mexico
Nava-Reyna, Erika:
CENID RASPA INIFAP, Km 6-5 Margen Derecha Canal Sacramento, Durango 35140, Mexico
Vaca-Paniagua, Felipe:
Univ Nacl Autonoma Mexico, Fac Estudios Super Iztacala, Lab Nacl Salud Diagnost Mol & Efecto Ambiental En, Av Barrios 1, Tlalnepantla 54090, Estado De Mexic, Mexico
Diaz-Velasquez, Clara:
Univ Nacl Autonoma Mexico, Fac Estudios Super Iztacala, Lab Nacl Salud Diagnost Mol & Efecto Ambiental En, Av Barrios 1, Tlalnepantla 54090, Estado De Mexic, Mexico
Meza-Herrera, Cesar A.:
Univ Autonoma Chapingo URUZA, Carretera Gomez Palacio Ciudad Juarez Km 40 S-N, Durango 35230, Mexico
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