PRJNA173401
Microbial communities during crude oil degradation Targeted Locus/Loci
This dataset is generated by relatively relaxed criteria (as described below) than those used in the related paper, so as to allow for a complete picture of the data and more data to be preserved for other types of analyses. The primers used for amplification of the 16S rRNA gene V3 region are: the forward primer 5’-NNNNNNNNCCTACGGGAGGCAGCAG-3’ and the reverse primer 5’-NNNNNNNNATTACCGCGGCTGCT-3’. The NNNNNNNN are the sample-unique 8- base barcode. So each read has been labeled with a 8 nucleotide tag adjacent to the primer, however, the first 2 nucleotides are for protection and only the last 6 nucleotides ( 3rd to 8th position of the tag from 5’ to 3’ end ) are used as barcode. All reads from a whole sequencing run are assigned to their corresponding samples as follows: 1) Search the primer with BLAST (Word size=4, e value=0.1) at the sequencing end; 2) Locate the barcode according to the position of the primer; 3) If the barcode is complete, assign the read to the corresponding sample based on the barcode list of the samples of this experiment; 4) If the barcode is not complete, go to the other end to search the primer with BLAST (Word size=4, e value=0.1); 5) Repeat step 2 and 3; 6) If the barcode is not complete, discard the sequence; 7) Repeat this process until all the reads have been checked. Both barcodes and primers are included in the texts of the FASTA file. Barcodes are listed below:  Sample name  barcode 182           AGTACATG  185           AGTGATAT 188           AGTCATCG 192           ACATATAG S022          AAGAGTAT 119           AGCGATGT 120           AGATCTCT 121           AGATCATG 124           AGAGTGCT   The dynamic changes of four consortia which were incubated under sulphate reducting and methanogenic conditions at both mesophilic and thermophilic temperature for 540 days.