吉兰丹河流域不同土地利用类型下细菌群落的宏基因组数据。
Metagenomic data of bacterial community from different land uses at the river basin, Kelantan.
作者信息
Rupert Rennielyn, Lie Grace Joy Chin Wei, John Daisy Vanitha, Annammala Kogila Vani, Jani Jaeyres, Rodrigues Kenneth Francis
机构信息
Biotechnology Research Institute, Universiti Malaysia Sabah, Jalan UMS, Kota Kinabalu, Sabah 88400, Malaysia.
Department of Neuromicrobiology, National Institute of Mental Health and Neurosciences, Bangalore, India.
出版信息
Data Brief. 2020 Sep 28;33:106351. doi: 10.1016/j.dib.2020.106351. eCollection 2020 Dec.
The data provided in the article includes the sequence of bacterial 16S rRNA gene from a high conservation value forest, logged forest, rubber plantation and oil palm plantation collected at Kelantan river basin. The logged forest area was previously notified as a flooding region. The total gDNA of bacterial community was amplified via polymerase chain reaction at V3-V4 regions using a pair of specific universal primer. Amplicons were sequenced on Illumina HiSeq paired-end platform to generate 250 bp paired-end raw reads. Several bioinformatics tools such as FLASH, QIIME and UPARSE were used to process the reads generated for OTU analysis. Meanwhile, R&D software was used to construct the taxonomy tree for all samples. Raw data files are available at the Sequence Read Archive (SRA), NCBI and data information can be found at the BioProject and BioSample, NCBI. The data shows the comparison of bacterial community between the natural forest and different land uses.
文章中提供的数据包括从吉兰丹河流域采集的具有高保护价值森林、采伐森林、橡胶种植园和油棕种植园的细菌16S rRNA基因序列。该采伐森林区域先前被划定为洪水泛滥区。使用一对特异性通用引物通过聚合酶链反应在V3-V4区域扩增细菌群落的总基因组DNA。扩增子在Illumina HiSeq双端平台上进行测序，以生成250 bp的双端原始读数。使用FLASH、QIIME和UPARSE等几种生物信息学工具处理生成的读数以进行OTU分析。同时，使用研发软件构建所有样本的分类树。原始数据文件可在NCBI的序列读取存档（SRA）中获取，数据信息可在NCBI的生物项目和生物样本中找到。数据显示了天然林与不同土地利用方式之间细菌群落的比较。
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