Design and validation of a PCR screen for γ-butyrolactone-like regulatory systems in Streptomyces
This archive contains data related to the article "Design and validation of a PCR screen for γ-butyrolactone-like regulatory systems in Streptomyces" in Access Microbiology. analysis_data_and_script.zip: cblaster output data search_ScbA_ScbR_600.txt - cblaster output file extracted_cluster...
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Format: | Article in Journal/Newspaper |
Language: | unknown |
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2023
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Online Access: | https://zenodo.org/record/8270271 https://doi.org/10.5281/zenodo.8270271 |
Summary: | This archive contains data related to the article "Design and validation of a PCR screen for γ-butyrolactone-like regulatory systems in Streptomyces" in Access Microbiology. analysis_data_and_script.zip: cblaster output data search_ScbA_ScbR_600.txt - cblaster output file extracted_clusters_cblaster - gbk files of all clusters obtained using cblaster extract all_sequences.fasta - amino acid sequences of all proteins in the extracted clusters R markdown "Analysis script.rmd", which also contains some instructions for some bash operations using seqkit and grep intermediary files generated: ScbA_divergent_genes.txt - IDs of ScbA genes in divergent pair ScbR_divergent_genes.txt - IDs of ScbR genes in divergent pair ScbA_divergent.fasta - sequences of ScbA genes in divergent pair ScbR_divergent.fasta - sequences of ScbR genes in divergent pair ETxRx_containing_ScbA_list.txt - list of IDs of ScbA homologs containing ETxRx motif in divergent pair YFHx_containing_ScbR_list.txt - list of IDs of ScbR homologs containing YFHx motif in divergent pair ETxRx_containing_gbk_list.txt - list of extracted cluster genbank files containing ScbA homolog with ETxRx motif in divergent pair ETxRx_and_YFHx_containing_gbk_list.txt - list of extracted cluster genbank files containing ScbA homolog with ETxRx motif and ScbR homolog with YFHx motif in divergent pair, i.e. co-occurrence of motifs Sanger sequences (ending in .seq) of the PCR reactions The genomes of three newly sequenced Antarctic Streptomyces (illumina and nanopore hybrid assembly using unicycler). |
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