Wellcome Open Research最新文献

{"title":"The genome sequence of the Roundleaf geranium, <i>Geranium rotundifolium</i> L. (Geraniales: Geraniaceae).","authors":"Maarten J M Christenhusz, Alex D Twyford","doi":"10.12688/wellcomeopenres.26116.1","DOIUrl":"https://doi.org/10.12688/wellcomeopenres.26116.1","url":null,"abstract":"<p><p>We present a genome assembly of <i>Geranium rotundifolium</i> (Roundleaf geranium; Streptophyta; Magnoliopsida; Geraniales; Geraniaceae). The genome sequence has a total length of 497.00 megabases. Most of the assembly (97.57%) is scaffolded into 13 chromosomal pseudomolecules. The mitochondrial sequence has a length of 335.81 kilobases and the plastid genome assembly has a length of 169.49 kilobases. Gene annotation of this assembly on Ensembl identified 29 331 protein-coding genes. 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":"11 ","pages":"168"},"PeriodicalIF":0.0,"publicationDate":"2026-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13096780/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147783021","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 tub gurnard, <i>Chelidonichthys lucerna</i> (Linnaeus, 1758) (Perciformes: Triglidae).","authors":"Rachel Brittain, Patrick Adkins, Kesella Scott-Somme, Joanna Harley, Vengamanaidu Modepali","doi":"10.12688/wellcomeopenres.25417.2","DOIUrl":"10.12688/wellcomeopenres.25417.2","url":null,"abstract":"<p><p>We present a genome assembly from an individual <i>Chelidonichthys lucerna</i> (tub gurnard; Chordata; Actinopteri; Perciformes; Triglidae). The assembly contains two haplotypes with total lengths of 649.07 megabases and 651.58 megabases. Most of haplotype 1 (96.66%) is scaffolded into 24 chromosomal pseudomolecules. Haplotype 2 was assembled to scaffold level. The mitochondrial genome has also been assembled, with a length of 16.52 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":"11 ","pages":"12"},"PeriodicalIF":0.0,"publicationDate":"2026-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12856256/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146107406","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 sweet violet, <i>Viola odorata</i> L. (Malpighiales: Violaceae).","authors":"Maarten J M Christenhusz, Michael F Fay, Ilia J Leitch","doi":"10.12688/wellcomeopenres.26151.1","DOIUrl":"https://doi.org/10.12688/wellcomeopenres.26151.1","url":null,"abstract":"<p><p>We present a genome assembly of <i>Viola odorata</i> (Sweet violet; Streptophyta; Magnoliopsida; Malpighiales; Violaceae). The genome sequence has a total length of 698.62 megabases. Most of the assembly (99.9%) is scaffolded into 10 chromosomal pseudomolecules. The mitochondrial sequence has a length of 482.11 kilobases and the plastid genome assembly has a length of 158.28 kilobases. Gene annotation of this assembly on Ensembl identified 34 902 protein-coding genes. 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":"11 ","pages":"177"},"PeriodicalIF":0.0,"publicationDate":"2026-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13058574/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147646846","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 Acorn Weevil, <i>Curculio glandium</i> (T.Marsham, 1802) (Coleoptera: Curculionidae).","authors":"Douglas Boyes, Liam M Crowley, James McCulloch, Clare Boyes","doi":"10.12688/wellcomeopenres.26157.1","DOIUrl":"https://doi.org/10.12688/wellcomeopenres.26157.1","url":null,"abstract":"<p><p>We present a genome assembly from an individual female <i>Curculio glandium</i> (Acorn Weevil; Arthropoda; Insecta; Coleoptera; Curculionidae). The genome sequence has a total length of 1 121.34 megabases. Most of the assembly (97.77%) is scaffolded into 13 chromosomal pseudomolecules, including the X sex chromosome. The mitochondrial genome has also been assembled, with a length of 21.61 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":"11 ","pages":"178"},"PeriodicalIF":0.0,"publicationDate":"2026-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13096787/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147782916","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 greenbottle fly, <i>Lucilia caesar</i> (Linnaeus, 1758) (Diptera: Calliphoridae).","authors":"Steven Falk, Liam M Crowley, Olga Sivell","doi":"10.12688/wellcomeopenres.26152.1","DOIUrl":"https://doi.org/10.12688/wellcomeopenres.26152.1","url":null,"abstract":"<p><p>We present a genome assembly from an individual male <i>Lucilia caesar</i> (greenbottle fly; Arthropoda; Insecta; Diptera; Calliphoridae). The genome sequence has a total length of 615.55 megabases. Most of the assembly (88.01%) is scaffolded into 6 chromosomal pseudomolecules, including the X sex chromosome. The mitochondrial genome has also been assembled, with a length of 15.94 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":"11 ","pages":"163"},"PeriodicalIF":0.0,"publicationDate":"2026-03-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13125994/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147821397","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":"Mechanistic yellow fever modelling under climate change in Brazil and beyond: Information gaps and future steps.","authors":"Livia Abdalla, Angélica S da Mata, Keith J Fraser, Sally Jahn, Eduardo Krempser, Adriano Pinter, Alessandro Pecego Martins Romano, Antônio Ralph Medeiros-Sousa, Daniel Garkauskas Ramos, Helio Junji Shimozako, Luis Filipe Mucci, Luiz Antonio Costa Gomes, Luiz Carlos Junior Alcantra, Ramon Silva Oliviera, Rodrigo Otávio Pereira Sayago Soares, Vinicius Pereira Feijó, Douglas Augusto, Marcia Chame, Katy A M Gaythorpe","doi":"10.12688/wellcomeopenres.24901.2","DOIUrl":"https://doi.org/10.12688/wellcomeopenres.24901.2","url":null,"abstract":"<p><p>Yellow fever (YF) remains a significant public health threat in tropical regions, particularly in South America and Africa. The combined forces of climate change, land-use, urbanisation, globalisation, and insufficient surveillance and health infrastructure are driving the re-emergence and expansion of YF into new areas. While mathematical models have been used to estimate transmission risk, disease burden, and the impact of vaccination, there remains a crucial gap in mechanistic models that explicitly capture how climate and environmental changes directly influence YF transmission. To address this gap, we convened a workshop in Brazil as part of the Vaccine Impact Modelling Consortium's Climate Change programme, bringing together national and international experts. The workshop aimed to present current modelling approaches, identify key knowledge gaps, and develop strategies to improve data collection and model applicability. Discussions highlighted major uncertainties regarding vectors, non-human primates, surveillance sensitivity, vaccination, and climatic and environmental drivers. This paper synthesises the outcomes of the workshop, including priority areas for future research and recommendations for advancing mechanistic YF modelling in the context of climate change, with a focus on both Brazil and broader tropical regions.</p>","PeriodicalId":23677,"journal":{"name":"Wellcome Open Research","volume":"10 ","pages":"596"},"PeriodicalIF":0.0,"publicationDate":"2026-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13040231/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147610181","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":"Parental report of language, attention and executive functions at two years: correlational structure of measures and applications to prematurity.","authors":"Rebekah Smikle, Kadi Vaher, Lorena Jiménez-Sánchez, Amy Corrigan, Helen Turner, Sue Fletcher-Watson, Simon R Cox, Hilary Richardson, James P Boardman","doi":"10.12688/wellcomeopenres.24065.2","DOIUrl":"https://doi.org/10.12688/wellcomeopenres.24065.2","url":null,"abstract":"<p><strong>Background: </strong>Parent-report measures are increasingly used in research and clinical settings to assess early cognitive outcomes after preterm birth. Directly observed cognitive measures often share a correlational structure, from which a general factor of cognition is calculable. We investigated associations between gestational age at birth and language, attention and executive function at two years using parent-report measures and examined whether a general factor could be derived from parental assessment of abilities across these domains.</p><p><strong>Methods: </strong>183 2-year-old children (96 preterm and 87 term) were assessed for language using the Vineland Adaptive Behaviour Scales-3rd edition and the MacArthur-Bates Communicative Development Inventory, attention using the Early Childhood Behaviour Questionnaire, and executive functions using the Behaviour Rating Inventory of Executive Function-Preschool version. Linear regression was performed to determine associations with gestational age for each domain, adjusting for infant sex, age at testing, and maternal education. Spearman correlations ( <i>rho</i>) and principal component analysis were used to investigate correlational structure across domains.</p><p><strong>Results: </strong>By parental report, gestational age at birth predicts language (standardised estimates 0.13 to 0.21, corrected <i>p</i>-values <0.05), but not attention or executive functions, at age 2 years. Scores across domains were modestly correlated: language and attention ( <i>rho</i> = 0.29 to 0.32; <i>p-</i> values <0.05), attention and executive functions ( <i>rho</i> = 0.19 to 0.30; <i>p-</i> values <0.05), language and executive functions ( <i>rho</i> = 0.19; <i>p-</i> values <0.05). The first principal component explained a substantial proportion of variance (35.4%) amongst measures, indicating a general factor.</p><p><strong>Conclusions: </strong>Parents of 2-year-old preterm children report reduced language ability, but similar attention and executive function development compared to term-born children. A general factor explains a significant proportion of variance in parental ratings of cognition across domains in early childhood.</p>","PeriodicalId":23677,"journal":{"name":"Wellcome Open Research","volume":"10 ","pages":"317"},"PeriodicalIF":0.0,"publicationDate":"2026-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13032106/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147575467","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":"Prenatal lead exposure: associations with growth and anthropometry in early childhood in a UK observational birth cohort study.","authors":"Caroline M Taylor, Jean Golding, Katarzyna Kordas","doi":"10.12688/wellcomeopenres.16338.3","DOIUrl":"https://doi.org/10.12688/wellcomeopenres.16338.3","url":null,"abstract":"<p><strong>Background: </strong>Lead is a neurotoxic metal that crosses the placenta freely. It has adverse effects on a range of birth outcomes. The few studies reporting on the associations of prenatal exposure to lead and child growth have had conflicting results. This study aimed to examine the effect of prenatal exposure to lead on children's growth from 4 to 61 months of age.</p><p><strong>Methods: </strong>Pregnant women were enrolled in the UK Avon Longitudinal Study of Parents and Children (ALSPAC). Whole blood samples for pregnancies with a live birth were analysed for lead (n = 4140). A 10% subsample of the offspring cohort (Children in Focus) were invited to clinics at 10 time points (4-61 months) at which anthropometric measurements were carried out; z-scores for height, weight and BMI were calculated using the 1990 British Growth Reference Standards. Associations between prenatal log ₁₀-lead concentrations and z-scores and other anthropometric measures were modelled using adjusted linear regression models in an imputed dataset for children who attended at least one clinic (n = 574).</p><p><strong>Results: </strong>The median prenatal blood lead concentration was 3.60 (IQR 2.61-4.16) μg/dl. There was no evidence for any associations of prenatal lead exposure with z-scores for BMI, height or weight in adjusted models from age 4 to 61 months. There were no associations for other anthropometric measures including mid-upper arm circumference, head circumference and waist circumference. There was some evidence for a weakly positive effect of prenatal lead exposure on head circumference in girls at age 43 and 61 months (at 61 months unstandardised B coefficient 1.59 (95% CI 0.12, 3.16) cm per 1 unit log ₁₀ μg/dl, p = 0.048) but not at other ages.</p><p><strong>Conclusions: </strong>There was no consistent evidence of associations between prenatal exposure to lead and measures of growth and anthropometry from age 4 to 61 months in this cohort of children in the UK.</p>","PeriodicalId":23677,"journal":{"name":"Wellcome Open Research","volume":"5 ","pages":"235"},"PeriodicalIF":0.0,"publicationDate":"2026-03-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13062770/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147677234","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":"Adoption and use of the 7-1-7 metrics for effective detection, notification, and early response actions to public health events: A mixed-methods study in Cambodia, January 2023 to July 2025.","authors":"Sokly Mom, Sopheavy Seng, Hay Puthik Long, Kannamkottapilly Chandrasekharan Prajitha, Chanrasmey Pech, Sovann Sao, Sengdeourn Yi, Sovann Ly","doi":"10.12688/wellcomeopenres.25041.3","DOIUrl":"https://doi.org/10.12688/wellcomeopenres.25041.3","url":null,"abstract":"<p><strong>Background: </strong>The 7-1-7 metrics with ≤7 days for detection, ≤1 day for notification, ≤7 days to complete early response actions during public health outbreaks, enable early detection, notification, and rapid response. We evaluated the adoption, use of 7-1-7 metrics, and the bottlenecks and enablers for achieving the metrics in the public health sector of Cambodia.</p><p><strong>Methods: </strong>A sequential explanatory mixed-methods design was used. A cross-sectional study using a structured checklist was employed to assess the level of adoption (26 participants) and a cohort design to assess use of 7-1-7 metrics for the public health events reported between Jan'23 and Jul'2025. A qualitative descriptive study using 6 focus group discussions and 22 key informant interviews was conducted to explore the bottlenecks and enablers in 7-1-7 adoption and implementation.</p><p><strong>Results: </strong>Adoption of 7-1-7 metrics was achieved at national level and is in progress at the subnational level. Health system readiness, intersectoral coordination, capacity building, budget and resources, and digital data collection were major themes that influence adoption. Among 58 events, 26 were respiratory illnesses. The median (range) time was 6(<1-149) days for detection, with 36(62%) events meeting the target; less than 24 hours(0-4) for notification with 51(88%) events meeting the target; 1(1-101) day for early response with 50(86%) events meeting the target. Overall, 28(48%) events met all targets. Among 168 bottlenecks identified, 86(62%) were for detection, and among the 226 enablers identified, 94(42%) were related to early responses. Key bottlenecks included delayed care-seeking, low awareness among private health workers, and lack of community knowledge. Significant enablers included strong reporting lines and rapid coordinated response mechanisms.</p><p><strong>Conclusion: </strong>Cambodia has made substantial progress in adopting and implementing the 7-1-7 metrics. Delays in detection remain a key challenge; addressing this through enhanced risk communication, stronger private sector engagement, and improved surveillance capacity will strengthen Cambodia's overall outbreak preparedness.</p>","PeriodicalId":23677,"journal":{"name":"Wellcome Open Research","volume":"10 ","pages":"673"},"PeriodicalIF":0.0,"publicationDate":"2026-03-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12988362/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147469314","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 bloodfluke planorb, <i>Biomphalaria glabrata</i> NIMR strain (Say, 1818).","authors":"Matthew Berriman, Sarah Buddenborg","doi":"10.12688/wellcomeopenres.22819.2","DOIUrl":"10.12688/wellcomeopenres.22819.2","url":null,"abstract":"<p><p>We present a genome assembly from an individual <i>Biomphalaria glabrata</i> NIMR strain (bloodfluke planorb; Mollusca; Gastropoda; Planorbidae). The genome sequence spans 850.60 megabases. Most of the assembly is scaffolded into 18 chromosomal pseudomolecules. The mitochondrial genome has also been assembled and is 13.67 kilobases in length. Gene annotation of this assembly on Ensembl identified 25,327 protein-coding genes.</p>","PeriodicalId":23677,"journal":{"name":"Wellcome Open Research","volume":"9 ","pages":"435"},"PeriodicalIF":0.0,"publicationDate":"2026-03-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13000397/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147499844","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}