干旱区生态环境知识资源中心(Arid): Testing the Two-Step Model of Plant Root Microbiome Acquisition Under Multiple Plant Species and Soil Sources

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DOI	10.3389/fmicb.2020.542742
	Testing the Two-Step Model of Plant Root Microbiome Acquisition Under Multiple Plant Species and Soil Sources
	Barajas, Hugo R.; Martinez-Sanchez, Shamayim; Romero, Miguel F.; Hernandez Alvarez, Cristobal; Servin-Gonzalez, Luis; Peimbert, Mariana; Cruz-Ortega, Rocio; Garcia-Oliva, Felipe; Alcaraz, Luis D.
通讯作者	Alcaraz, LD
来源期刊	FRONTIERS IN MICROBIOLOGY
ISSN	1664-302X
出版年	2020
卷号	11
英文摘要	The two-step model for plant root microbiomes considers soil as the primary microbial source. Active selection of the plant's bacterial inhabitants results in a biodiversity decrease toward roots. We collected sixteen samples ofin situruderal plant roots and their soils and used these soils as the main microbial input for single genotype tomatoes grown in a greenhouse. Our main goal was to test the soil influence in the structuring of rhizosphere microbiomes, minimizing environmental variability, while testing multiple plant species. We massively sequenced the 16S rRNA and shotgun metagenomes of the soils,in situplants, and tomato roots. We identified a total of 271,940 bacterial operational taxonomic units (OTUs) within the soils, rhizosphere and endospheric microbiomes. We annotated by homology a total of 411,432 (13.07%) of the metagenome predicted proteins. Tomato roots did follow the two-step model with lower alpha-diversity than soil, while ruderal plants did not. Surprisingly, ruderal plants are probably working as a microenvironmental oasis providing moisture and plant-derived nutrients, supporting larger alpha-diversity. Ruderal plants and their soils are closer according to their microbiome community composition than tomato and its soil, based on OTUs and protein comparisons. We expected that tomato beta-diversity clustered together with their soil, if it is the main rhizosphere microbiome structuring factor. However, tomato microbiome beta-diversity was associated with plant genotype in most samples (81.2%), also supported by a larger set of enriched proteins in tomato rhizosphere than soil or ruderals. The most abundant bacteria found in soils was the ActinobacteriaSolirubrobacter soli, ruderals were dominated by the ProteobacteriaSphingomonassp. URGHD0057, and tomato mainly by the BacteroidetesOhtaekwangia koreensis,Flavobacterium terrae, Niastella vici, andChryseolinea serpens.We calculated a metagenomic tomato root core of 51 bacterial genera and 2,762 proteins, which could be the basis for microbiome-oriented plant breeding programs. We attributed a larger diversity in ruderal plants roots exudates as an effect of the moisture and nutrient acting as a microbial harbor. The tomato and ruderal metagenomic differences are probably due to plant domestication trade-offs, impacting plant-bacteria interactions.
英文关键词	plant microbiome soil microbiome rhizosphere metagenomics core metagenome domesticated plants ruderal plants common garden experiment
类型	Article
语种	英语
开放获取类型	gold, Green Published, Green Submitted
收录类别	SCI-E
WOS记录号	WOS:000581061700001
WOS关键词	BACTERIAL COMMUNITY STRUCTURE ; LEUCINE AMINOPEPTIDASE ; RHIZOSPHERE MICROBIOME ; GROWTH-PROMOTION ; TOMATO ; DIVERSITY ; ATTACHMENT ; SELECTION ; PROTEIN ; MAIZE
WOS类目	Microbiology
WOS研究方向	Microbiology
来源机构	Universidad Nacional Autónoma de México
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/327023
作者单位	[Barajas, Hugo R.; Martinez-Sanchez, Shamayim; Romero, Miguel F.; Hernandez Alvarez, Cristobal; Alcaraz, Luis D.] Univ Nacl Autonoma Mexico, Fac Ciencias, Dept Biol Celular, Mexico City, DF, Mexico; [Servin-Gonzalez, Luis] Univ Nacl Autonoma Mexico, Dept Biol Mol & Biotecnol, Inst Invest Biomed, Mexico City, DF, Mexico; [Peimbert, Mariana] Univ Autonoma Metropolitana, Dept Ciencias Nat, Unidad Cuajimalpa, Mexico City, DF, Mexico; [Cruz-Ortega, Rocio] Univ Nacl Autonoma Mexico, Dept Ecol Func, Lab Alelopatia, Inst Ecol, Mexico City, DF, Mexico; [Garcia-Oliva, Felipe] Univ Nacl Autonoma Mexico, Inst Invest Ecosistemas & Sustentabilidad, Morelia, Michoacan, Mexico
推荐引用方式 GB/T 7714	Barajas, Hugo R.,Martinez-Sanchez, Shamayim,Romero, Miguel F.,et al. Testing the Two-Step Model of Plant Root Microbiome Acquisition Under Multiple Plant Species and Soil Sources[J]. Universidad Nacional Autónoma de México,2020,11.
APA	Barajas, Hugo R..,Martinez-Sanchez, Shamayim.,Romero, Miguel F..,Hernandez Alvarez, Cristobal.,Servin-Gonzalez, Luis.,...&Alcaraz, Luis D..(2020).Testing the Two-Step Model of Plant Root Microbiome Acquisition Under Multiple Plant Species and Soil Sources.FRONTIERS IN MICROBIOLOGY,11.
MLA	Barajas, Hugo R.,et al."Testing the Two-Step Model of Plant Root Microbiome Acquisition Under Multiple Plant Species and Soil Sources".FRONTIERS IN MICROBIOLOGY 11(2020).