Evidence for Divergence of the Genus ‘<i>Solwaraspora</i>’ Within the Bacterial Family <i>Micromonosporaceae</i>
The purpose of this study was to investigate the taxonomic and phylogenomic placement of the proposed genus ‘<i data-eusoft-scrollable-element="1">Solwaraspora</i>’ within the context of other marine genera using a dual-omics approach. Initially, we isolated bacteria from marin...
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2025-07-01
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| author | Hailee I. Porter Imraan Alas Nyssa K. Krull Doug R. Braun Scott R. Rajski Brian T. Murphy Tim S. Bugni |
| author_facet | Hailee I. Porter Imraan Alas Nyssa K. Krull Doug R. Braun Scott R. Rajski Brian T. Murphy Tim S. Bugni |
| author_sort | Hailee I. Porter |
| collection | DOAJ |
| description | The purpose of this study was to investigate the taxonomic and phylogenomic placement of the proposed genus ‘<i data-eusoft-scrollable-element="1">Solwaraspora</i>’ within the context of other marine genera using a dual-omics approach. Initially, we isolated bacteria from marine tunicates, squirts, and sponges, which were morphologically similar to an emerging genus (identified as ‘<i data-eusoft-scrollable-element="1">Micromonospora</i>_E’ by the GTDB-tk2 database using whole genome sequence data) by colony shape, size, and clustering pattern, but only found five strains in our dataset belonging to this distinction. Due to the minimally explored nature of this genus, we sought to identify more bacterial strains with similar morphology to <i data-eusoft-scrollable-element="1">Micromonospora</i>‘<i data-eusoft-scrollable-element="1">Micromonospora</i>_E’ by whole genome sequencing (WGS). Within our collection, we noted 35 strains that met this criterion and extracted genomic information to perform WGS on these strains. With this information, we studied taxonomic and phylogenomic relationships among these organisms. Using the data gathered from WGS, we were able to identify an additional five strains labeled by the GTDB-tk2 database as <i data-eusoft-scrollable-element="1">Micromonospora</i>‘<i data-eusoft-scrollable-element="1">Micromonospora</i>_E’, as well as construct phylogenomic trees to examine the evolutionary relationships between these strains. ANI values were calculated between strains from our dataset and type strains of <i data-eusoft-scrollable-element="1">Micromonospora</i> and <i data-eusoft-scrollable-element="1">Plantactinospora</i> as well as against an outgroup <i data-eusoft-scrollable-element="1">Streptomyces</i> strain. No type strains are available for ‘<i data-eusoft-scrollable-element="1">Solwaraspora</i>’. Using MALDI-TOF MS, we positively identified ‘<i data-eusoft-scrollable-element="1">Solwaraspora</i>’, which was supported by the phylogenomic tree showing <i data-eusoft-scrollable-element="1">Micromonospora</i>’<i data-eusoft-scrollable-element="1">Micromonospora</i>_E’ (‘<i data-eusoft-scrollable-element="1">Solwaraspora</i>’) in a distinct clade from <i data-eusoft-scrollable-element="1">Plantactinospora</i> and <i data-eusoft-scrollable-element="1">Micromonospora</i>. Additionally, we discovered gene cluster families (GCFs) in alignment with genera, as well as a large representation of biosynthetic gene clusters (BGCs) coming from the ‘<i data-eusoft-scrollable-element="1">Solwaraspora</i>’ strains. These findings suggest significant potential to discover novel chemistry from ‘<i data-eusoft-scrollable-element="1">Solwaraspora</i>’, adding to the importance of investigating this new genus of bacteria. |
| format | Article |
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| institution | DOAJ |
| issn | 2076-2607 |
| language | English |
| publishDate | 2025-07-01 |
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| series | Microorganisms |
| spelling | doaj-art-c62adafd2ecd4428ac45ee431edf1feb2025-08-20T03:08:06ZengMDPI AGMicroorganisms2076-26072025-07-01137157610.3390/microorganisms13071576Evidence for Divergence of the Genus ‘<i>Solwaraspora</i>’ Within the Bacterial Family <i>Micromonosporaceae</i>Hailee I. Porter0Imraan Alas1Nyssa K. Krull2Doug R. Braun3Scott R. Rajski4Brian T. Murphy5Tim S. Bugni6School of Pharmacy, University of Wisconsin-Madison, Madison, WI 53705, USASchool of Pharmacy, University of Wisconsin-Madison, Madison, WI 53705, USADepartment of Pharmaceutical Sciences, University of Illinois at Chicago, Chicago, IL 60607, USASchool of Pharmacy, University of Wisconsin-Madison, Madison, WI 53705, USASchool of Pharmacy, University of Wisconsin-Madison, Madison, WI 53705, USADepartment of Pharmaceutical Sciences, University of Illinois at Chicago, Chicago, IL 60607, USASchool of Pharmacy, University of Wisconsin-Madison, Madison, WI 53705, USAThe purpose of this study was to investigate the taxonomic and phylogenomic placement of the proposed genus ‘<i data-eusoft-scrollable-element="1">Solwaraspora</i>’ within the context of other marine genera using a dual-omics approach. Initially, we isolated bacteria from marine tunicates, squirts, and sponges, which were morphologically similar to an emerging genus (identified as ‘<i data-eusoft-scrollable-element="1">Micromonospora</i>_E’ by the GTDB-tk2 database using whole genome sequence data) by colony shape, size, and clustering pattern, but only found five strains in our dataset belonging to this distinction. Due to the minimally explored nature of this genus, we sought to identify more bacterial strains with similar morphology to <i data-eusoft-scrollable-element="1">Micromonospora</i>‘<i data-eusoft-scrollable-element="1">Micromonospora</i>_E’ by whole genome sequencing (WGS). Within our collection, we noted 35 strains that met this criterion and extracted genomic information to perform WGS on these strains. With this information, we studied taxonomic and phylogenomic relationships among these organisms. Using the data gathered from WGS, we were able to identify an additional five strains labeled by the GTDB-tk2 database as <i data-eusoft-scrollable-element="1">Micromonospora</i>‘<i data-eusoft-scrollable-element="1">Micromonospora</i>_E’, as well as construct phylogenomic trees to examine the evolutionary relationships between these strains. ANI values were calculated between strains from our dataset and type strains of <i data-eusoft-scrollable-element="1">Micromonospora</i> and <i data-eusoft-scrollable-element="1">Plantactinospora</i> as well as against an outgroup <i data-eusoft-scrollable-element="1">Streptomyces</i> strain. No type strains are available for ‘<i data-eusoft-scrollable-element="1">Solwaraspora</i>’. Using MALDI-TOF MS, we positively identified ‘<i data-eusoft-scrollable-element="1">Solwaraspora</i>’, which was supported by the phylogenomic tree showing <i data-eusoft-scrollable-element="1">Micromonospora</i>’<i data-eusoft-scrollable-element="1">Micromonospora</i>_E’ (‘<i data-eusoft-scrollable-element="1">Solwaraspora</i>’) in a distinct clade from <i data-eusoft-scrollable-element="1">Plantactinospora</i> and <i data-eusoft-scrollable-element="1">Micromonospora</i>. Additionally, we discovered gene cluster families (GCFs) in alignment with genera, as well as a large representation of biosynthetic gene clusters (BGCs) coming from the ‘<i data-eusoft-scrollable-element="1">Solwaraspora</i>’ strains. These findings suggest significant potential to discover novel chemistry from ‘<i data-eusoft-scrollable-element="1">Solwaraspora</i>’, adding to the importance of investigating this new genus of bacteria.https://www.mdpi.com/2076-2607/13/7/1576biosynthetic gene clusterdrug discoverygenomicsmarine-derivednatural products |
| spellingShingle | Hailee I. Porter Imraan Alas Nyssa K. Krull Doug R. Braun Scott R. Rajski Brian T. Murphy Tim S. Bugni Evidence for Divergence of the Genus ‘<i>Solwaraspora</i>’ Within the Bacterial Family <i>Micromonosporaceae</i> Microorganisms biosynthetic gene cluster drug discovery genomics marine-derived natural products |
| title | Evidence for Divergence of the Genus ‘<i>Solwaraspora</i>’ Within the Bacterial Family <i>Micromonosporaceae</i> |
| title_full | Evidence for Divergence of the Genus ‘<i>Solwaraspora</i>’ Within the Bacterial Family <i>Micromonosporaceae</i> |
| title_fullStr | Evidence for Divergence of the Genus ‘<i>Solwaraspora</i>’ Within the Bacterial Family <i>Micromonosporaceae</i> |
| title_full_unstemmed | Evidence for Divergence of the Genus ‘<i>Solwaraspora</i>’ Within the Bacterial Family <i>Micromonosporaceae</i> |
| title_short | Evidence for Divergence of the Genus ‘<i>Solwaraspora</i>’ Within the Bacterial Family <i>Micromonosporaceae</i> |
| title_sort | evidence for divergence of the genus i solwaraspora i within the bacterial family i micromonosporaceae i |
| topic | biosynthetic gene cluster drug discovery genomics marine-derived natural products |
| url | https://www.mdpi.com/2076-2607/13/7/1576 |
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