Wellcome Open Research最新文献

{"title":"The chromosomal genome sequence of the photosymbiotic ascidian, <i>Trididemnum clinides</i> Kott, 1977 and its associated microbial metagenome sequences.","authors":"Euichi Hirose, Jose Victor Lopez, Graeme Oatley, Elizabeth Sinclair, Eerik Aunin, Noah Gettle, Camilla Santos, Michael Paulini, Haoyu Niu, Victoria McKenna, Rebecca O'Brien","doi":"10.12688/wellcomeopenres.24563.2","DOIUrl":"10.12688/wellcomeopenres.24563.2","url":null,"abstract":"<p><p>We present a genome assembly from a specimen of <i>Trididemnum clinides</i> (photosymbiotic ascidian; Chordata; Ascidiacea; Aplousobranchia; Didemnidae). The <i>T. clinides</i> genome sequence has a total length of 906.92 megabases. Most of the assembly (97.83%) is scaffolded into 23 chromosomal pseudomolecules. The mitochondrial genome has also been assembled and is 14.98 kilobases in length. The host ascidian has multiple symbionts, including <i>Prochloron</i>, a cyanobacterial genus that can also synthesise bioactive natural products of interest for potential therapeutic development. Biosynthesis of active compounds sometimes involves microbial associates.</p>","PeriodicalId":23677,"journal":{"name":"Wellcome Open Research","volume":"10 ","pages":"357"},"PeriodicalIF":0.0,"publicationDate":"2025-10-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12432502/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145065655","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The genome sequence of the Common Buzzard, <i>Buteo buteo</i> (Linnaeus, 1758).","authors":"Elizabeth Blows","doi":"10.12688/wellcomeopenres.23873.2","DOIUrl":"10.12688/wellcomeopenres.23873.2","url":null,"abstract":"<p><p>We present a genome assembly from a male specimen of <i>Buteo buteo</i> (Common Buzzard; Chordata; Aves; Accipitriformes; Accipitridae). The assembly contains two haplotypes with total lengths of 1,303.68 megabases and 1,330.55 megabases. Most of haplotype 1 (94.6%) is scaffolded into 34 chromosomal pseudomolecules, including the Z sex chromosome. Haplotype 2 is a scaffold-level assembly. The mitochondrial genome has also been assembled, with a length of 18.36 kilobases.</p>","PeriodicalId":23677,"journal":{"name":"Wellcome Open Research","volume":"10 ","pages":"130"},"PeriodicalIF":0.0,"publicationDate":"2025-09-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12481152/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145207811","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The genome sequence of the Anthracite Bee-fly, <i>Anthrax anthrax</i> (Schrank, 1781).","authors":"Liam M Crowley","doi":"10.12688/wellcomeopenres.24305.2","DOIUrl":"10.12688/wellcomeopenres.24305.2","url":null,"abstract":"<p><p>We present a genome assembly from a male specimen of <i>Anthrax anthrax</i> (Anthracite Bee-fly; Arthropoda; Insecta; Diptera; Bombyliidae). The genome sequence has a total length of 334.62 megabases. The assembly is scaffolded into 9 chromosomal pseudomolecules, including the X and Y sex chromosomes. The mitochondrial genome has also been assembled, with a length of 20.34 kilobases. Gene annotation of this assembly on Ensembl identified 10,570 protein-coding genes.</p>","PeriodicalId":23677,"journal":{"name":"Wellcome Open Research","volume":"10 ","pages":"306"},"PeriodicalIF":0.0,"publicationDate":"2025-09-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12489455/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145233543","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The genome sequence of a springtail, <i>Orchesella flavescens</i> (C.Bourlet, 1839).","authors":"James McCulloch, Liam M Crowley","doi":"10.12688/wellcomeopenres.23773.2","DOIUrl":"10.12688/wellcomeopenres.23773.2","url":null,"abstract":"<p><p>We present a genome assembly from a specimen of <i>Orchesella flavescens</i> (springtail; Arthropoda; Collembola; Entomobryomorpha; Orchesellidae). The genome sequence has a total length of 273.69 megabases. Most of the assembly (99.88%) is scaffolded into 6 chromosomal pseudomolecules. The mitochondrial genome has also been assembled and is 14.92 kilobases in length.</p>","PeriodicalId":23677,"journal":{"name":"Wellcome Open Research","volume":"10 ","pages":"138"},"PeriodicalIF":0.0,"publicationDate":"2025-09-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12476540/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145193122","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The genome sequence of the Treble Lines, <i>Charanyca trigrammica</i> (Hufnagel, 1766) (Lepidoptera: Noctuidae).","authors":"Douglas Boyes, Clare Boyes","doi":"10.12688/wellcomeopenres.24867.1","DOIUrl":"https://doi.org/10.12688/wellcomeopenres.24867.1","url":null,"abstract":"<p><p>We present a genome assembly from an individual male <i>Charanyca trigrammica</i> (Treble Lines; Arthropoda; Insecta; Lepidoptera; Noctuidae). The assembly contains two haplotypes with total lengths of 546.43 megabases and 546.58 megabases. Most of haplotype 1 (99.97%) is scaffolded into 31 chromosomal pseudomolecules, including the Z sex chromosome. Haplotype 2 was assembled to scaffold level. The mitochondrial genome has also been assembled, with a length of 15.44 kilobases. This assembly was generated as part of the Darwin Tree of Life project, which produces reference genomes for eukaryotic species found in Britain and Ireland.</p>","PeriodicalId":23677,"journal":{"name":"Wellcome Open Research","volume":"10 ","pages":"520"},"PeriodicalIF":0.0,"publicationDate":"2025-09-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12501593/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145252967","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The genome sequence of the Leafhopper, <i>Cicadella viridis</i> (Linnaeus, 1758) (Hemiptera: Cicadellidae).","authors":"Liam M Crowley, James McCulloch","doi":"10.12688/wellcomeopenres.24866.1","DOIUrl":"10.12688/wellcomeopenres.24866.1","url":null,"abstract":"<p><p>We present a genome assembly from an individual female <i>Cicadella viridis</i> (Leafhopper; Arthropoda; Insecta; Hemiptera; Cicadellidae). The genome sequence has a total length of 1 425.45 megabases. Most of the assembly (99.3%) is scaffolded into 11 chromosomal pseudomolecules, including the X sex chromosome. The mitochondrial genome has also been assembled, with a length of 19.59 kilobases. This assembly was generated as part of the Darwin Tree of Life project, which produces reference genomes for eukaryotic species found in Britain and Ireland.</p>","PeriodicalId":23677,"journal":{"name":"Wellcome Open Research","volume":"10 ","pages":"502"},"PeriodicalIF":0.0,"publicationDate":"2025-09-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12485336/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145214017","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Adverse maternal and fetal outcomes in mouse models of prenatal infections.","authors":"Evgeniya V Shmeleva, Delia Hawkes, Cecilia Lusuardi, Yasmin Adewusi, Salvatore Valenti, Francesco Colucci","doi":"10.12688/wellcomeopenres.23556.2","DOIUrl":"10.12688/wellcomeopenres.23556.2","url":null,"abstract":"<p><strong>Background: </strong>Prenatal infections are a leading cause of adverse pregnancy outcomes, yet the mechanisms underlying pathogen-specific effects on maternal and fetal health remain poorly understood.</p><p><strong>Methods: </strong>Here we conducted a comparative analysis of four mouse models of prenatal infection: <i>Toxoplasma gondii</i> (intraperitoneal), vaccinia virus (intranasal), murine cytomegalovirus (intravenous) and influenza A virus (intranasal).</p><p><strong>Results: </strong>We found markedly different effects on maternal morbidity and mortality, with <i>T. gondii</i> causing severe pregnancy-specific pathology leading to maternal mortality by 8 days post-infection, despite similar pathogen loads in pregnant and non-pregnant mice. Vaccinia virus caused prenatal morbidity, while cytomegalovirus and influenza induced only mild, transient effects. The maternal mortality in <i>T.gondii</i> infection was most likely due to immunopathology, while vaccinia virus caused prenatal morbidity possibly due to tissue infection. None of the pathogens directly infected the fetuses, yet both <i>T. gondii</i> and vaccinia virus significantly impaired both uterine vascular remodelling and fetal growth. Notably, pregnancy was found to be a modifier of local but not systemic immune responses, with reduced inflammatory cytokine production in uterine tissue of infected pregnant mice compared to non-pregnant controls.</p><p><strong>Conclusions: </strong>These models provide a systematic platform for understanding pathogen-specific mechanisms of pregnancy complications and identifying therapeutic targets.</p>","PeriodicalId":23677,"journal":{"name":"Wellcome Open Research","volume":"10 ","pages":"142"},"PeriodicalIF":0.0,"publicationDate":"2025-09-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12481148/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145207780","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Alterations of Hepcidin and Iron Markers Associated with Obesity and Obesity-related Diabetes in Gambian Women.","authors":"Meike Siemonsma, Carla Cerami, Bakary Darboe, Hans Verhoef, Andrew M Prentice, Modou Jobe","doi":"10.12688/wellcomeopenres.22997.2","DOIUrl":"10.12688/wellcomeopenres.22997.2","url":null,"abstract":"<p><strong>Aims: </strong>Obesity, type 2 diabetes (T2D), and chronic inflammation are associated with disturbances in iron metabolism. Hepcidin is hypothesized to play a role in these alterations owing to its strong association with inflammation via the JAK-STAT3 pathway. The current study investigated the differences between inflammatory markers and iron indices and their association with hepcidin in lean women, women with obesity, and women with obesity and T2D (obesity-T2D) in The Gambia.</p><p><strong>Materials and methods: </strong>In a cross-sectional study design, fasted blood samples were collected from three groups of women: lean women (n=42, geometric mean (GM) body mass index (BMI)=20.9 kg/m ²), women with obesity (n=48, GM BMI=33.1 kg/m ²) and women with obesity-T2D (n=30, GM BMI=34.5 kg/m ²). Markers of inflammation (IL-6 and CRP) and iron metabolism [hepcidin, iron, ferritin, soluble transferrin receptor (sTfR), transferrin, transferrin saturation, and unsaturated iron-binding capacity (UIBC)] were compared using linear regression models. Simple regression analyses were performed to assess the association between hepcidin levels and respective markers.</p><p><strong>Results: </strong>Women with obesity and obesity-T2D showed elevated levels of inflammatory markers. There was no evidence that markers of iron metabolism differed between lean women and obese women, but women with obesity-T2D had higher transferrin saturation, higher serum iron concentration, and lower UIBC. Serum hepcidin concentrations were similar in all the groups. Hepcidin was not associated with markers of inflammation but was strongly associated with all other iron indices (all P<0.002).</p><p><strong>Conclusion: </strong>Contrary to our original hypothesis, hepcidin was not associated with markers of inflammation in the three groups of Gambian women, despite the presence of chronic inflammation in women with obesity and obesity-T2D.</p>","PeriodicalId":23677,"journal":{"name":"Wellcome Open Research","volume":"9 ","pages":"666"},"PeriodicalIF":0.0,"publicationDate":"2025-09-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12398679/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144971286","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The genome sequence of the Orange Beauty, <i>Commophila aeneana</i> (Hübner, 1799-1800) (Lepidoptera: Tortricidae).","authors":"David C Lees","doi":"10.12688/wellcomeopenres.24865.1","DOIUrl":"https://doi.org/10.12688/wellcomeopenres.24865.1","url":null,"abstract":"<p><p>We present a genome assembly from a female <i>Commophila aeneana</i> (Orange Beauty; Arthropoda; Insecta; Lepidoptera; Tortricidae). The assembly consists of two haplotypes with total lengths of 429.47 megabases and 322.66 megabases. Most of haplotype 1 (99.82%) is scaffolded into 25 chromosomal pseudomolecules, including the W and Z sex chromosomes., and most of haplotype 2 (99.71%) is scaffolded into 23 chromosomal pseudomolecules. The mitochondrial genome has also been assembled, with a length of 16.5 kilobases.</p>","PeriodicalId":23677,"journal":{"name":"Wellcome Open Research","volume":"10 ","pages":"489"},"PeriodicalIF":0.0,"publicationDate":"2025-09-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12501591/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145252918","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The genome sequence of a bluebottle fly, <i>Calliphora vicina</i> Robineau-Desvoidy, 1830.","authors":"Olga Sivell","doi":"10.12688/wellcomeopenres.22469.2","DOIUrl":"10.12688/wellcomeopenres.22469.2","url":null,"abstract":"<p><p>We present a genome assembly from an individual female <i>Calliphora vicina</i> (bluebottle blow fly; Arthropoda; Insecta; Diptera; Calliphoridae). The genome sequence is 706.5 megabases in span. Most of the assembly is scaffolded into 6 chromosomal pseudomolecules, including the X sex chromosome. The mitochondrial genome has also been assembled and is 16.72 kilobases in length. Gene annotation of this assembly on Ensembl identified 13,436 protein coding genes.</p>","PeriodicalId":23677,"journal":{"name":"Wellcome Open Research","volume":"9 ","pages":"335"},"PeriodicalIF":0.0,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11519611/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142547833","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}