GeoChip as a metagenomics tool to analyze the microbial gene diversity along an elevation gradient
نویسندگان
چکیده
To examine microbial responses to climate change, we used a microarray-based metagenomics tool named GeoChip 4.0 to profile soil microbial functional genes along four sites/elevations of a Tibetan mountainous grassland. We found that microbial communities differed among four elevations. Soil pH, temperature, NH4 (+)-N and vegetation diversity were four major attributes affecting soil microbial communities. Here we describe in details the experiment design, the data normalization process, soil and vegetation analyses associated with the study published on ISME Journal in 2014 [1], whose raw data have been uploaded to Gene Expression Omnibus (accession number GSM1185243).
منابع مشابه
Dramatic Increases of Soil Microbial Functional Gene Diversity at the Treeline Ecotone of Changbai Mountain
The elevational and latitudinal diversity patterns of microbial taxa have attracted great attention in the past decade. Recently, the distribution of functional attributes has been in the spotlight. Here, we report a study profiling soil microbial communities along an elevation gradient (500-2200 m) on Changbai Mountain. Using a comprehensive functional gene microarray (GeoChip 5.0), we found t...
متن کاملThe Biogeographic Pattern of Microbial Functional Genes along an Altitudinal Gradient of the Tibetan Pasture
As the highest place of the world, the Tibetan plateau is a fragile ecosystem. Given the importance of microbial communities in driving soil nutrient cycling, it is of interest to document the microbial biogeographic pattern here. We adopted a microarray-based tool named GeoChip 4.0 to investigate grassland microbial functional genes along an elevation gradient from 3200 to 3800 m above sea lev...
متن کاملStudy on the variation of plant species diversity components along elevation gradient using additive partitioning (case study: protected area of Geno, Hormozgan province)
Conservation of vegetation is one of most important tools for conservation of soil and decreasing erosion. Therefore, knowledge about vegetation characteristics, such as diversity, is the first and most important biological tools for soil conservation. One of the methods in which we can collect useful data about plant diversity, is additive partitioning. In the current study, plant species dive...
متن کاملAnalyses of the influencing factors of soil microbial functional gene diversity in tropical rainforest based on GeoChip 5.0
To examine soil microbial functional gene diversity and causative factors in tropical rainforests, we used a microarray-based metagenomic tool named GeoChip 5.0 to profile it. We found that high microbial functional gene diversity and different soil microbial metabolic potential for biogeochemical processes were considered to exist in tropical rainforest. Soil available nitrogen was the most as...
متن کاملThe existence of a unimodal or monotonic pattern in species richness and diversity along an elevational gradient: a case study in Heydari Wildlife Refuge, NE Iran
This article presents an analysis of plant species richness and diversity, concerning some climatic variables along a 1500-m elevation gradient on the Binalood Mountain in Heydari Wildlife Refuge (HWR), northeastern Iran. Two hundred and thirteen nested-sampling quadrats were established and the abundance of the plants was recorded. Vegetation sampling was carried out from 2014 till 2016, foll...
متن کامل