Integrated analysis of root microbiomes of soybean and wheat from agricultural fields

Scientific Reports
Nicolás RascovanMartín P Vazquez

Abstract

Root associated bacteria are critical for plant growth and health. Understanding the composition and role of root microbiota is crucial toward agricultural practices that are less dependent on chemical fertilization, which has known negative effects on the environment and human health. Here we analyzed the root-associated microbiomes of soybean and wheat under agricultural field conditions. We took samples from 11 different production fields across a large geographic area. We used 16S rRNA pyrosequencing to explore root microbial communities and also obtained 2,007 bacterial isolates from rhizospheres, which were tested for the presence of plant growth promoting (PGP) traits in-vitro. We observed that pH and nitrate content correlated with beta diversity variability of rhizospheric bacterial communities despite the variable field conditions. We described the dominant bacterial groups associated to roots from both crops at a large geographic scale and we found that a high proportion of them (60-70%) showed more than 97% similarity to bacteria from the isolated collection. Moreover, we observed that 55% of the screened isolates presented PGP activities in vitro. These results are a significant step forward in understanding crop-a...Continue Reading

References

May 26, 1999·Proceedings of the National Academy of Sciences of the United States of America·H ZhangB G Forde
Dec 1, 2000·Applied and Environmental Microbiology·J C Cho, J M Tiedje
May 6, 2003·Science·R E Evenson, D Gollin
Nov 19, 2003·Journal of Experimental Botany·Sophie Mantelin, Bruno Touraine
Mar 5, 2005·Applied and Environmental Microbiology·Patrick D Schloss, Jo Handelsman
Feb 1, 1991·Applied and Environmental Microbiology·J M BricS E Silverstone
May 4, 2006·Annual Review of Plant Biology·Harsh P BaisJorge M Vivanco
Jun 9, 2009·Applied and Environmental Microbiology·Christian L LauberNoah Fierer
Apr 13, 2010·Nature Methods·J Gregory CaporasoRob Knight
Jun 11, 2010·Proceedings of the National Academy of Sciences of the United States of America·J Gregory CaporasoRob Knight
May 9, 2012·Trends in Plant Science·Roeland L BerendsenPeter A H M Bakker
Aug 4, 2012·Nature·Derek S LundbergJeffery L Dangl
Mar 19, 2013·Journal of Experimental Botany·Sarah M Rich, Michelle Watt
Apr 12, 2013·Proceedings of the National Academy of Sciences of the United States of America·Jason A PeifferRuth E Ley
Jun 29, 2013·Genome Biology·Thomas R TurnerPhilip S Poole
Aug 13, 2013·American Journal of Botany·Jonathan R GaieroKari E Dunfield
Aug 21, 2013·American Journal of Botany·Luke A Moe
Sep 17, 2013·Applied Microbiology and Biotechnology·Laetitia Herrmann, Didier Lesueur
Sep 26, 2013·Frontiers in Plant Science·Jordan VacheronClaire Prigent-Combaret
Oct 8, 2013·Microbiological Research·Bernard R Glick
Jan 1, 2012·Scientifica·Michael Torbenson
Jan 1, 2012·Scientifica·Bernard R Glick
Jan 1, 2014·Proceedings of the National Academy of Sciences of the United States of America·Klaus SchlaeppiPaul Schulze-Lefert
Feb 21, 2014·The ISME Journal·Lucas W MendesSiu M Tsai
Jun 18, 2014·Frontiers in Microbiology·Devin Coleman-Derr, Susannah G Tringe
Jul 26, 2014·Plant Physiology·Venkatachalam LakshmananHarsh P Bais
Aug 15, 2014·Plant Physiology·Clelia De-la-Peña, Víctor M Loyola-Vargas
Mar 4, 2015·Cell Host & Microbe·Davide BulgarelliPaul Schulze-Lefert
Apr 25, 2015·Journal of Experimental Botany·Andrzej Tkacz, Philip Poole

❮ Previous
Next ❯

Citations

Sep 20, 2017·Microbial Biotechnology·Cristal ZuñigaKarsten Zengler
Mar 24, 2018·International Journal of Environmental Research and Public Health·Nicholas Ozede Igiehon, Olubukola Oluranti Babalola
Nov 23, 2018·The Plant Journal : for Cell and Molecular Biology·Kathleen BeilsmithJoy Bergelson
Feb 7, 2019·PloS One·Pablo de Jesús Suárez-MooAngélica Cibrián-Jaramillo
Sep 11, 2018·The Open Microbiology Journal·Nicholas O Igiehon, Olubukola O Babalola
Aug 21, 2019·Microorganisms·Rahul Mahadev ShelakeJae-Yean Kim
Oct 29, 2019·Canadian Journal of Microbiology·Jorge CorderoJames J Germida
Oct 14, 2019·Journal of Applied Microbiology·Yumei DaiTao Wang
Mar 30, 2017·PLoS Biology·Posy E BusbyJeffery L Dangl
May 4, 2018·Frontiers in Microbiology·Dominika ThiemKatarzyna Hrynkiewicz
Oct 6, 2020·Frontiers in Microbiology·Olubukola Oluranti BabalolaAyansina S Ayangbenro
Mar 12, 2019·Frontiers in Microbiology·Ainelén PiazzaNatalia Gottig
Dec 19, 2019·Frontiers in Microbiology·Ryan C McDonaldHarold J Schreier
Jun 26, 2020·Frontiers in Bioengineering and Biotechnology·Rodrigo Rodriguez, Paola Durán
Aug 6, 2019·Frontiers in Nutrition·Graeme T AttwoodJeanne M E Jacobs
Jan 29, 2019·Frontiers in Microbiology·Nesli ToviDror Minz
Oct 24, 2020·Current Genomics·Minaxi SharmaPratishtha Gupta
Dec 22, 2017·The Science of the Total Environment·Tanzelle OberholsterAngel Valverde
May 5, 2021·Revista Argentina de microbiología·Marianela Estefanía MoralesMaría Celina Zabaloy
May 4, 2021·Frontiers in Microbiology·Laura StefanChristian Schöb
Apr 1, 2021·The Plant Journal : for Cell and Molecular Biology·Hao-Xun ChangMartin I Chilvers
Jun 23, 2021·Environmental Microbiome·Samuel Mm PrudenceMatthew I Hutchings

❮ Previous
Next ❯

Datasets Mentioned

BETA
SRR3330056
SRR3330057
PRJNA317286

Methods Mentioned

BETA
PCR
amplicon sequencing

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Epigenetics Insights from Twin Studies

Find the latest research on epigenetics and twin studies here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Regulation of Vocal-Motor Plasticity

Dopaminergic projections to the basal ganglia and nucleus accumbens shape the learning and plasticity of motivated behaviors across species including the regulation of vocal-motor plasticity and performance in songbirds. Discover the latest research on the regulation of vocal-motor plasticity here.

Myocardial Stunning

Myocardial stunning is a mechanical dysfunction that persists after reperfusion of previously ischemic tissue in the absence of irreversible damage including myocardial necrosis. Here is the latest research.