High-throughput sequencing data of soil bacterial communities from Tweefontein indigenous and commercial forests, South Africa

Abstract

In this report, the high-throughput sequencing data of soil bacterial communities from indigenous and commercial forests in Tweefontein, South Africa are presented. These data were collected to study the influence of land-use change on soil bacterial diversity and community structure in forests. Illumina Miseq sequencing of 16S rRNA gene amplicon was carried out on soils sampled from Tweefontein commercial (TC) and indigenous (TI) forests in South Africa. The metagenome contained 101,938 sequences with 46,709,377 bp size and 57% G + C content in TI and 91,160 sequences with 41,707,827 bp size and 57% G + C content in TC. Metagenome sequence information are available at NCBI under the Sequence Read Archive (SRA) database with accession numbers SRR8134476 (TI) and SRR8135323 (TC). Taxonomic hits distribution from Metagenomic Rast Server (MG-RAST) analysis of the TI sample revealed the dominance of the phyla Acidobacteria (21.61%), Actinobacteria (18.23%) and Verrucomicrobia (16.78%). Predominant genera were Candidatus Koribacter (12.82%), Candidatus Solibacter (11.74%) and Chthoniobacter (9.36%). MG-RAST assisted analysis of TC sample also detected the dominance of Actinobacteria (23.62%) along with Verrucomicrobia (21.92%) and Acidobacteria (20.74%). Predominant genera were Chthoniobacter (24.94%), Candidatus Solibacter (16.74%) and Candidatus Koribacter (9.39%) which play vital ecological functions in forest ecosystems.

Variation of Soil Bacterial Communities in Forest Soil Contaminated with Chainsaw Lubricants

“…Chthoniobacter flavus was the most abundant in municipal solid waste from Nagpur, Maharashtra, India, and this bacterium can degrade organic pollutants through the biostimulation process [ 46 ]. Chthoniobacter was one of the dominant genera in soil from the indigenous and commercial forests in South Africa [ 47 ]. The abundance of Chthoniobacter in organic cropping systems was higher than that in conventional cropping systems [ 48 ].…”

Microbial Diversity of Temperate Pine and Native Forest Soils Profiled by 16S rRNA Gene Amplicon Sequencing

“…Using a soil corer, replicate samples (4 soil cores) were collected within multiple tree rows from 2 native forests and 2 plantations located in Tweefontein (−24°58′N, 30.48′E) and Witklip (−25°12′N, 30°56′E), South Africa. Pinus patula is the dominating tree species in the plantations, while Acacia xanthophloea and Celtis africana dominate the native forests (details in references 4 and 7 ). Soil samples were collected in July 2016 at a 2-cm diameter and 10-cm depth within multiple tree rows ( 4 , 7 ).…”

“… Pinus patula is the dominating tree species in the plantations, while Acacia xanthophloea and Celtis africana dominate the native forests (details in references 4 and 7 ). Soil samples were collected in July 2016 at a 2-cm diameter and 10-cm depth within multiple tree rows ( 4 , 7 ). Soil samples in plastic bags were transported to the lab on ice and stored at 4°C in the dark until analyzed (DNA extraction was carried out 3 days after sampling).…”