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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ftzenodo:oai:zenodo.org:8270271 2023-09-05T13:15:24+02:00 Design and validation of a PCR screen for γ-butyrolactone-like regulatory systems in Streptomyces Valentin Waschulin 2023-06-29 https://zenodo.org/record/8270271 https://doi.org/10.5281/zenodo.8270271 unknown doi:10.5281/zenodo.8094742 https://zenodo.org/record/8270271 https://doi.org/10.5281/zenodo.8270271 oai:zenodo.org:8270271 info:eu-repo/semantics/openAccess https://creativecommons.org/licenses/by/4.0/legalcode info:eu-repo/semantics/article publication-article 2023 ftzenodo https://doi.org/10.5281/zenodo.827027110.5281/zenodo.8094742 2023-08-22T23:06:17Z 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). Article in Journal/Newspaper Antarc* Antarctic Zenodo Antarctic |
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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). |
format |
Article in Journal/Newspaper |
author |
Valentin Waschulin |
spellingShingle |
Valentin Waschulin Design and validation of a PCR screen for γ-butyrolactone-like regulatory systems in Streptomyces |
author_facet |
Valentin Waschulin |
author_sort |
Valentin Waschulin |
title |
Design and validation of a PCR screen for γ-butyrolactone-like regulatory systems in Streptomyces |
title_short |
Design and validation of a PCR screen for γ-butyrolactone-like regulatory systems in Streptomyces |
title_full |
Design and validation of a PCR screen for γ-butyrolactone-like regulatory systems in Streptomyces |
title_fullStr |
Design and validation of a PCR screen for γ-butyrolactone-like regulatory systems in Streptomyces |
title_full_unstemmed |
Design and validation of a PCR screen for γ-butyrolactone-like regulatory systems in Streptomyces |
title_sort |
design and validation of a pcr screen for γ-butyrolactone-like regulatory systems in streptomyces |
publishDate |
2023 |
url |
https://zenodo.org/record/8270271 https://doi.org/10.5281/zenodo.8270271 |
geographic |
Antarctic |
geographic_facet |
Antarctic |
genre |
Antarc* Antarctic |
genre_facet |
Antarc* Antarctic |
op_relation |
doi:10.5281/zenodo.8094742 https://zenodo.org/record/8270271 https://doi.org/10.5281/zenodo.8270271 oai:zenodo.org:8270271 |
op_rights |
info:eu-repo/semantics/openAccess https://creativecommons.org/licenses/by/4.0/legalcode |
op_doi |
https://doi.org/10.5281/zenodo.827027110.5281/zenodo.8094742 |
_version_ |
1776197199640657920 |