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Here, we characterize the genomic and functional diversity of 19\n                    <jats:italic>Pseudoalteromonas<\/jats:italic>\n                    isolates from the bivalve\n                    <jats:italic>Anadara tuberculosa<\/jats:italic>\n                    to elucidate ecological strategies enabling coexistence in host-associated environments. Whole-genome sequencing and phylogenomic inference revealed extensive genomic diversity, with most isolates affiliated with recognized taxa and two genomically distinct lineages representing candidate novel species. Functional profiling with Traitar identified 67 traits related to enzymatic activity, substrate utilization, and environmental tolerance, revealing a bimodal structure: one assemblage (\n                    <jats:italic>Pseudoalteromonas maricaloris<\/jats:italic>\n                    ,\n                    <jats:italic>Pseudoalteromonas xiamenensis<\/jats:italic>\n                    ,\n                    <jats:italic>Pseudoalteromonas piscicida<\/jats:italic>\n                    ) exhibited diverse biosynthetic pathways consistent with chemical competition strategies, while a second assemblage including the two candidate species displayed broader carbohydrate utilization with streamlined biosynthetic capacity. Notably, unique non-NRPS siderophore clusters in\n                    <jats:italic>Pseudoalteromonas gelatinilytica<\/jats:italic>\n                    and one candidate species suggest alternative iron acquisition strategies adapted to host-associated niches. Principal coordinate analysis revealed two distinct ecological assemblages, indicating that functional differentiation through niche partitioning rather than direct competition enables coexistence of phylogenetically related populations within the bivalve microbiome. Comparative genomic metrics (ANI, AAI, dDDH) support the proposal of\n                    <jats:italic>Pseudoalteromonas pianguae<\/jats:italic>\n                    sp. nov. and\n                    <jats:italic>Pseudoalteromonas iscuandensis<\/jats:italic>\n                    sp. nov., expanding the known diversity of this ecologically important genus. This genome-informed approach provides mechanistic insight into bacterial diversification in tropical bivalve holobionts and establishes a foundation for exploring\n                    <jats:italic>Pseudoalteromonas<\/jats:italic>\n                    -mediated interactions in marine invertebrate microbiomes.\n                  <\/jats:p>","DOI":"10.1007\/s00248-026-02753-y","type":"journal-article","created":{"date-parts":[[2026,4,24]],"date-time":"2026-04-24T10:33:50Z","timestamp":1777026830000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Genomic and Functional Diversity of Pseudoalteromonas Associated with the Tropical Bivalve Anadara tuberculosa"],"prefix":"10.1007","volume":"89","author":[{"given":"Mariana","family":"Restrepo-Benavides","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pedro","family":"Jim\u00e9nez","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mar\u00eda Jos\u00e9","family":"Figueras","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Silvia","family":"Restrepo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mar\u00eda Mercedes","family":"Zambrano","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Isabel","family":"Pujol","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marcela","family":"Guevara-Suarez","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ana","family":"Fern\u00e1ndez-Bravo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2026,4,24]]},"reference":[{"key":"2753_CR1","doi-asserted-by":"publisher","first-page":"755","DOI":"10.1099\/00207713-45-4-755","volume":"45","author":"G Gauthier","year":"1995","unstructured":"Gauthier G, Gauthier M, Christen R (1995) Phylogenetic analysis of the genera Alteromonas, Shewanella, and Moritella using genes coding for small-subunit rRNA sequences and division of the genus Alteromonas into two genera, Alteromonas (emended) and Pseudoalteromonas gen. nov., and proposal of twelve new species combinations. 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