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This work refines vSpeciateDB and VALENCIA using sequencing from 1,924 women aged 45–72 from SWAN and HIP, expanding region-specific databases and improving species-level classification from 95% to 98%. Hierarchical clustering identified three novel sub-CSTs with distinct taxa profiles, capturing 24.3% of peri/postmenopausal samples and improving CST assignment quality for multiple age groups. Future analyses evaluate associations with menopausal genitourinary syndrome and recurrent urinary tract infections.",{"@graph":69,"@context":122},[70,84,105],{"@type":71,"itemListElement":72},"BreadcrumbList",[73,77,79,82],{"item":74,"name":75,"@type":76,"position":8},"https://docshare.wps.com","Home","ListItem",{"item":78,"name":9,"@type":76,"position":14},"https://docshare.wps.com/document/",{"item":80,"name":40,"@type":76,"position":81},"https://docshare.wps.com/document/research-report/",3,{"item":83,"name":65,"@type":76,"position":19},"https://docshare.wps.com/document/optimizing-taxonomic-assignments-and-community-state-types-for-the-vaginal-microbiota-in-older-women/428162/",{"url":83,"name":65,"@type":85,"image":86,"author":91,"headline":65,"publisher":94,"fileFormat":97,"inLanguage":63,"description":67,"dateModified":98,"datePublished":99,"encodingFormat":97,"isAccessibleForFree":100,"interactionStatistic":101},"DigitalDocument",{"url":87,"@type":88,"width":89,"height":90},"https://docshare.wps.com/thumbnails/optimizing-taxonomic-assignments-and-community-state-types-for-the-vaginal-microbiota-in-older-women/428162.png","ImageObject",300,407,{"name":92,"@type":93},"Cipher","Person",{"url":74,"name":95,"@type":96},"DocShare","Organization","application/pdf","2026-10-19","2026-09-29",true,{"@type":102,"interactionType":103,"userInteractionCount":29},"InteractionCounter",{"@type":104},"ViewAction",{"@type":106,"mainEntity":107},"FAQPage",[108,114,118],{"name":109,"@type":110,"acceptedAnswer":111},"Why might existing vaginal microbiota classification tools underperform in older women?","Question",{"text":112,"@type":113},"They were developed using data from reproductive-age women, while peri- and postmenopausal microbiota shift with declining estrogen levels.","Answer",{"name":115,"@type":110,"acceptedAnswer":116},"What data and tools were used to improve taxonomic assignments and CST definitions?",{"text":117,"@type":113},"The study refined vSpeciateDB and VALENCIA using sequencing data from 1,924 peri/postmenopausal women aged 45–72 from SWAN and HIP.",{"name":119,"@type":110,"acceptedAnswer":120},"What major finding emerged from hierarchical clustering of peri/postmenopausal samples?",{"text":121,"@type":113},"Three novel sub-CSTs were identified, differing in relative abundances of taxa such as Prevotella and Finegoldia, and accounting for 24.3% of samples.","https://schema.org",{"og:url":83,"og:type":124,"og:title":65,"og:site_name":95,"og:description":67},"article",{"robots":126,"canonical":83},"index,follow",{"doc_id":128,"site_id":62},428162,1790705213,{"code":4,"msg":5,"data":131},{"doc_id":128,"user_id":132,"nickname":92,"user_avatar":133,"doc_module":4,"category_id":39,"category_name":40,"doc_title":65,"doc_description":67,"doc_content":134,"file_id":135,"file_url":136,"file_type":137,"file_size":138,"view_count":29,"is_deleted":4,"is_public":8,"is_downloadable":8,"audit_status":8,"page_count":8,"language":139,"language_code":63,"site_id":62,"html_lang":63,"table_of_contents":140,"faqs":141,"seo_title":142,"seo_description":67,"update_tm":143,"read_time":81},687208528416,"https://ap-avatar.wpscdn.com/davatar_9964176cb1d06d4a9deccf72a44ae3dc","Innovation in Aging, 2025, Vol. 9, No. S2 1325  \nAbstract citation ID: igaf122.4408  \nOPTIMIZING TAXONOMIC ASSIGNMENTS AND  \nCOMMUNITY STATE TYPES FOR THE VAGINAL  \nMICROBIOTA IN OLDER WOMEN  \nSarah Brown1, Michael France1, L. Elaine Waetjen2, Michelle Shardell1, Rebecca Brotman1, Jacques Ravel1, and Johanna Holm1, 1. University of Maryland School of Medicine, Baltimore, Maryland, United States, 2. University of California Davis Health, Sacramento, California, United States  \nThe vaginal microbiome plays a critical role in protecting urogenital health across the lifespan, yet bioinformatic tools and community state type (CST) definitions derived from 16S rRNA gene amplicon sequencing data have been developed using data from reproductive-age women. As a result, current classification tools may not accurately describe the microbial compositions of peri- and postmenopausal women, whose vaginal microbiota shift significantly with declining estrogen levels. To address this gap, we refined two previously published key tools, vSpeciateDBand VALENCIA, using sequencing data from N = 1924 peri/postmenopausal women aged 45-72 who were enrolled in the Study of Women Across the Nation (SWAN) and the Human Papillomavirus in Perimenopause (HIP) study. We expanded the three region-specific vSpeciateDB databases with 3,092 high-confidence sequences, adding 826, 710, and 572 new species to theV1V3, V3V4, and V4 databases, respectively. This improved species-level classification rates for older women from 95% to 98%. Hierarchical clustering of 2281 peri/postmenopausal samples revealed three novel sub-CSTs of a CST previously described in reproductive-age women as low in Lactobacillus spp, moderate Prevotella abundance and high evenness of other species. These sub-CSTs differed in relative abundances of key taxa, including Prevotella, Finegoldia, Corynebacterium, Faecalibacterium, Fenollaria, and Phocaeicola, and accounted for 24.3% of peri/ postmenopausal samples, compared to 1.4% in reproductive-aged women. Including these sub-CSTs improved CST assignment quality for both reproductive-age and peri/postmenopausal women. Ongoing analyses will explore whether these sub-CSTs are differentially associated with health outcomes in older women including genitourinary syndrome of menopause andrecurrent urinary tract infections.","cbCaiu5EqFH6Otpg","https://ap.wps.com/l/cbCaiu5EqFH6Otpg","pdf",1160571,"English","# Abstract\n## Problem and gap in current CST tools\n## Methods: tool refinement and data sources\n## Results: database expansion and sub-CST identification\n## Implications and planned analyses","[{\"question\":\"Why might existing vaginal microbiota classification tools underperform in older women?\",\"answer\":\"They were developed using data from reproductive-age women, while peri- and postmenopausal microbiota shift with declining estrogen levels.\"},{\"question\":\"What data and tools were used to improve taxonomic assignments and CST definitions?\",\"answer\":\"The study refined vSpeciateDB and VALENCIA using sequencing data from 1,924 peri/postmenopausal women aged 45–72 from SWAN and HIP.\"},{\"question\":\"What major finding emerged from hierarchical clustering of peri/postmenopausal samples?\",\"answer\":\"Three novel sub-CSTs were identified, differing in relative abundances of taxa such as Prevotella and Finegoldia, and accounting for 24.3% of samples.\"}]","OPTIMIZING TAXONOMIC ASSIGNMENTS AND COMMUNITY STATE TYPES FOR THE VAGINAL MICROBIOTA IN OLDER WOMEN | PDF",1790645975]