Genome Biology and Evolution最新文献

Divergence and parallelism in two tropical drosophilids simultaneously invading a desert environment. 两种热带果蝇同时入侵沙漠环境的分化和平行现象。

IF 2.8 2区生物学

Genome Biology and Evolution Pub Date : 2025-07-30 DOI: 10.1093/gbe/evaf146

Ahmed M El-Sabrout, Céline Moreno, Mélody Temperville, Erina A Ferreira, David Ogereau, Issa Mze Hassani, Lala H Raveloson Ravaomanarivo, Héloïse Bastide, Amira Y Abou-Youssef, Amir Yassin

{"title":"Divergence and parallelism in two tropical drosophilids simultaneously invading a desert environment.","authors":"Ahmed M El-Sabrout, Céline Moreno, Mélody Temperville, Erina A Ferreira, David Ogereau, Issa Mze Hassani, Lala H Raveloson Ravaomanarivo, Héloïse Bastide, Amira Y Abou-Youssef, Amir Yassin","doi":"10.1093/gbe/evaf146","DOIUrl":"https://doi.org/10.1093/gbe/evaf146","url":null,"abstract":"Invasive species have once been called a 'grand experiment in evolution' but natural replicates of such experiments are often scarce. When two allied species acquire invasive capacities and co-invade a new environment, it remains unclear if similar genetic basis underlie adaptation to the new environment and how the two species can co-exist in that environment. Here, we investigate the parallel adaptation of two tropical drosophilid species of the genus Zaprionus, Z. indianus (the African fig fly) and Z. tuberculatus, to arid agrarian environments following their introduction in Egypt during the last four decades. We found the two species to have distinct spatial distribution. Population genomics analyses showed correlated differentiation levels at orthologous genes before and after introduction in both species, mostly in genes associated with thermal adaptations and circadian rhythms. Species-specific outliers contained on the other hand multiple chemoreceptor and xenobiotics detoxification genes indicating that adaptations to different host fruits may promote species coexistence. In agreement with these findings, we found the Egyptian populations to have parallel higher resistance to desiccation in both species and the two species to have distinct fruit preference. These results provide a significant step towards understanding the mechanisms underlying the simultaneous invasive success of both species, which have also recently invaded the Americas and Europe, and of which one at least is a notorious pest.","PeriodicalId":12779,"journal":{"name":"Genome Biology and Evolution","volume":" ","pages":""},"PeriodicalIF":2.8,"publicationDate":"2025-07-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144741979","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Lepidopteran Genomes Have Denser Transposable Elements in Smaller Chromosomes, Likely Driven by Non-allelic Homologous Recombination. 鳞翅目基因组在较小的染色体上具有更密集的转座元件，可能是由非等位基因同源重组驱动的。

IF 2.8 2区生物学

Genome Biology and Evolution Pub Date : 2025-07-30 DOI: 10.1093/gbe/evaf137

Hyerin An, Kiwoong Nam

{"title":"Lepidopteran Genomes Have Denser Transposable Elements in Smaller Chromosomes, Likely Driven by Non-allelic Homologous Recombination.","authors":"Hyerin An, Kiwoong Nam","doi":"10.1093/gbe/evaf137","DOIUrl":"10.1093/gbe/evaf137","url":null,"abstract":"Transposable elements (TEs) drive major genome size and structural variations, yet evolutionary forces affecting their accumulation and removal remain unclear. Classical models predict that higher recombination rates lead to more efficient purifying selection, such as TE removal. However, in the painted lady butterfly (Vanessa cardui), smaller chromosomes harbor denser TE content than larger ones despite higher recombination rates. This unexpected pattern raises questions about whether similar trends occur across other Lepidoptera species and what evolutionary forces are behind this pattern. Across ten species spanning ten lepidopteran families, we investigated the relationship between chromosome size and TE organization using comparative genomics. We observed that smaller chromosomes consistently have higher TE densities in all the investigated species. Chromosome size had positive correlations with average inter-TE distance for both young (<5% divergence) and old TEs (5% to 10% divergence). However, the ratio of these distances (young/old TEs) was negatively correlated with chromosome size in eight of ten species, with two showing no statistically significant correlation, suggesting that smaller chromosomes have higher removal rates of sequence between TEs, potentially due to nonallelic homologous recombination, causing the loss of unique sequences between nonallelic homologs. Population genomics analyses showed inconsistent correlations between chromosome size and genetic diversity or selection coefficients between Danaus plexippus and Spodoptera frugiperda, ruling out the efficiency of purifying selection or selective constraint as the main driver. Taken together, we demonstrate that Lepidoptera has a unique genomic feature of denser TEs in smaller chromosomes, with nonallelic homologous recombination as a potential driving force.","PeriodicalId":12779,"journal":{"name":"Genome Biology and Evolution","volume":" ","pages":""},"PeriodicalIF":2.8,"publicationDate":"2025-07-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144617241","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

A new perspective on the arrival of the Eastern Mediterranean genetic influx in Central Italy before the onset of the Roman Empire. 在罗马帝国开始之前，东地中海遗传涌入意大利中部的新观点。

IF 2.8 2区生物学

Genome Biology and Evolution Pub Date : 2025-07-26 DOI: 10.1093/gbe/evaf149

Francesco Ravasini, Cecilia Conati Barbaro, Christiana Lyn Scheib, Kristiina Tambets, Mait Metspalu, Fulvio Cruciani, Beniamino Trombetta, Eugenia D'Atanasio

{"title":"A new perspective on the arrival of the Eastern Mediterranean genetic influx in Central Italy before the onset of the Roman Empire.","authors":"Francesco Ravasini, Cecilia Conati Barbaro, Christiana Lyn Scheib, Kristiina Tambets, Mait Metspalu, Fulvio Cruciani, Beniamino Trombetta, Eugenia D'Atanasio","doi":"10.1093/gbe/evaf149","DOIUrl":"https://doi.org/10.1093/gbe/evaf149","url":null,"abstract":"Italian genetic history was profoundly shaped by the Romans. While the Iron Age Central Italian gene pool was comparable to that of other coeval Central/Western European regions, during the Imperial age it was significantly influenced by Eastern Mediterranean ancestries. To explain this genetic shift, it has been proposed that people from Eastern provinces of the Empire migrated towards its political center: Rome and its surroundings. In this study, by presenting a new Roman Republic individual (1.25x) and comparing it to other published Republican samples, we propose a novel perspective for the presence of the Eastern Mediterranean ancestry in the Imperial gene pool. We show that the spread of this genetic ancestry may have taken place earlier than previously thought, during the Late Republican period, therefore predating the onset of the Empire by ∼200 years. The diffusion of this ancestry occurred due to early East-to-West movements, either because Eastern Mediterranean regions were under Roman political influence since the Late Republican period, or even as a result of internal movements from Southern Italy where several Greek and Phoenician settlements were established during the 1st millennium BCE.","PeriodicalId":12779,"journal":{"name":"Genome Biology and Evolution","volume":" ","pages":""},"PeriodicalIF":2.8,"publicationDate":"2025-07-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144729936","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Climate Adaptation and Genetic Differentiation in the Mosquito Species Culex tarsalis. 库蚊的气候适应与遗传分化。

IF 3.2 2区生物学

Genome Biology and Evolution Pub Date : 2025-07-25 DOI: 10.1093/gbe/evaf143

Yunfei Liao, Touhid Islam, Rooksana Noorai, Jared Streich, Christopher Saski, Lee W Cohnstaedt, Elizabeth A Cooper

{"title":"Climate Adaptation and Genetic Differentiation in the Mosquito Species Culex tarsalis.","authors":"Yunfei Liao, Touhid Islam, Rooksana Noorai, Jared Streich, Christopher Saski, Lee W Cohnstaedt, Elizabeth A Cooper","doi":"10.1093/gbe/evaf143","DOIUrl":"https://doi.org/10.1093/gbe/evaf143","url":null,"abstract":"The increasing prevalence of vector-borne diseases around the world highlights the pressing need for an in-depth exploration of the genetic and environmental factors that shape the adaptability and widespread distribution of mosquito populations. This research focuses on Culex tarsalis, a principal vector for various viral diseases including West Nile Virus (WNV). Through the development of a new reference genome and the examination of Restriction-Site Associated DNA sequencing (RAD-seq) data from over 300 individuals and 28 locations, we demonstrate that variables such as temperature, evaporation rates, and the density of vegetation significantly impact the genetic makeup of Cx. tarsalis populations. Among the alleles most strongly associated with environmental factors is a nonsynonymous mutation in a key gene related to circadian rhythms. These results offer new insights into the mechanisms of spread and adaptation in a key North American vector species, which is poised to become a growing health threat to both humans and animals in the face of ongoing climate change.","PeriodicalId":12779,"journal":{"name":"Genome Biology and Evolution","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-07-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144707262","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Effect of oceanic islands on an insect symbiont genome in transition to a host-restricted lifestyle. 海洋岛屿对向宿主限制生活方式过渡的昆虫共生体基因组的影响。

IF 3.2 2区生物学

Genome Biology and Evolution Pub Date : 2025-07-25 DOI: 10.1093/gbe/evaf153

Allison K Hansen, Diana M Percy, Sen Mao, Patrick H Degnan

{"title":"Effect of oceanic islands on an insect symbiont genome in transition to a host-restricted lifestyle.","authors":"Allison K Hansen, Diana M Percy, Sen Mao, Patrick H Degnan","doi":"10.1093/gbe/evaf153","DOIUrl":"https://doi.org/10.1093/gbe/evaf153","url":null,"abstract":"Islands offer unique opportunities to study adaptive radiations and their impacts on host genome evolution. In Hawaiian Pariaconus psyllids, all species harbor the ancient nutritional symbiont Carsonella, while only free-living and open-gall species on younger islands host a second stable co-symbiont, Makana. In contrast, a third co-symbiont, Malihini, appears to be in an early-stage of host restriction and genome degradation, making it a valuable model for understanding symbiont evolution during island radiations. Here, we examine Malihini genome evolution across multiple Pariaconus lineages using 16S rRNA sequencing, metagenomics, phylogenetic reconstruction, and microscopy. We find that Malihini is co-diversifying with its hosts on the oldest island Kaua'i (kamua group; open- and closed-gall makers) and on the younger islands only in free-living species (bicoloratus group). Comparison of five Malihini genomes-including three newly assembled in this study-shows ongoing genome reduction from a large-genome ancestor (>3,900 protein-coding genes), likely driven by relaxed selection, vertical transmission bottlenecks, and island dispersal over the past 5-million-years. On Kaua'i, the galling psyllids appear to depend more heavily on co-symbiont (Malihini) for the biosynthesis of amino acids and B-vitamins than galling species on younger islands-especially closed-gall species, which only have Carsonella. Surprisingly, free-living psyllids on younger islands with all three symbionts, show metabolic reliance similar to Kaua'i gall-makers. Together, our results demonstrate that island biogeography and host plant ecology shape symbiont losses and co-diversification patterns. Malihini represents an early-stage of symbiont genome degradation during host restriction, in sharp contrast to its more stable co-residents, Carsonella and Makana.","PeriodicalId":12779,"journal":{"name":"Genome Biology and Evolution","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-07-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144715059","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Small genome size ensures adaptive flexibility for an alpine ginger. 小的基因组大小保证了高山姜的适应性。

IF 3.2 2区生物学

Genome Biology and Evolution Pub Date : 2025-07-24 DOI: 10.1093/gbe/evaf151

Qing-Song Xiao, Tomáš Fér, Wen Guo, Hong-Fan Chen, Li Li, Jian-Li Zhao

{"title":"Small genome size ensures adaptive flexibility for an alpine ginger.","authors":"Qing-Song Xiao, Tomáš Fér, Wen Guo, Hong-Fan Chen, Li Li, Jian-Li Zhao","doi":"10.1093/gbe/evaf151","DOIUrl":"https://doi.org/10.1093/gbe/evaf151","url":null,"abstract":"Understanding the proximate and ultimate causes of genome size (GS) variation has been the focus of considerable research. However, the extent and cause of intraspecific variation in GS are debated and poorly understood. This study aimed to test the role of genome size in adaptation through variations in intraspecific GS. GS was measured in 53 Roscoea tibetica populations from the Hengduan Mountains using flow cytometry. Stomatal size and density data were collected from wild and common garden populations. Associations among GS, environmental factors, and stomatal traits were explored. We found that high GS variability was positively correlated with most environmental factors, but negatively correlated with solar radiation during the growing season. The environment, rather than geography, significantly influenced variations in GS. Stomatal traits measured in the wild were significantly correlated with GS, but no such correlations were detected in the common garden. Populations in the common garden had larger stomatal sizes and lower stomatal densities. Populations with smaller GS presented a larger degree of stomatal trait variation from the wild to the common garden. Our findings suggest that intraspecific GS has undergone adaptive evolution driven by environmental stress. A smaller GS is more advantageous for the alpine ginger to adapt to and thrive in changing alpine habitats.","PeriodicalId":12779,"journal":{"name":"Genome Biology and Evolution","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-07-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144698392","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Testing for the genomic footprint of conflict between life stages in an angiosperm and moss species. 对被子植物和苔藓物种生命阶段冲突的基因组足迹进行测试。

IF 3.2 2区生物学

Genome Biology and Evolution Pub Date : 2025-07-23 DOI: 10.1093/gbe/evaf138

Meng Yuan, Leslie M Kollar, Bianca M Sacchi, Sarah B Carey, Baharul I Choudhury, Teresa Jones, Jane Grimwood, Spencer C H Barrett, Stuart F McDaniel, Stephen I Wright, John R Stinchcombe

{"title":"Testing for the genomic footprint of conflict between life stages in an angiosperm and moss species.","authors":"Meng Yuan, Leslie M Kollar, Bianca M Sacchi, Sarah B Carey, Baharul I Choudhury, Teresa Jones, Jane Grimwood, Spencer C H Barrett, Stuart F McDaniel, Stephen I Wright, John R Stinchcombe","doi":"10.1093/gbe/evaf138","DOIUrl":"https://doi.org/10.1093/gbe/evaf138","url":null,"abstract":"The maintenance of genetic variation by balancing selection is of considerable interest to evolutionary biologists. An important but understudied potential driver of balancing selection is antagonistic pleiotropy between diploid and haploid stages of the plant life cycle. Despite sharing a common genome, sporophytes (2n) and gametophytes (n) may undergo differential or even opposing selection. Theoretical work suggests the antagonistic pleiotropy between life stages can generate balancing selection and maintain genetic variation. Despite the potential for far-reaching consequences of gametophytic selection, empirical tests of its pleiotropic effects (neutral, synergistic, or antagonistic) on sporophytes are generally lacking. Here, we examined the population genomic signals of selection across life stages in the angiosperm Rumex hastatulus and the moss Ceratodon purpureus. We compared gene expression among life stages and between sexes, combined with neutral diversity statistics and the analysis of the distribution of fitness effects. In contrast to what would be predicted under balancing selection due to antagonistic pleiotropy, we found that unbiased genes between life stages were under stronger purifying selection, likely explained by a predominance of synergistic pleiotropy between life stages and strong purifying selection on broadly expressed genes. In addition, we found that 30% of candidate genes under balancing selection in R. hastatulus were located within inversion polymorphisms. Our findings provide novel insights into the genome-wide characteristics and consequences of plant gametophytic selection.","PeriodicalId":12779,"journal":{"name":"Genome Biology and Evolution","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-07-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144690037","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Domestication Reduces Plant Immune Receptor Gene Repertoires Across Lineages. 驯化降低了植物的免疫受体基因库。

IF 3.2 2区生物学

Genome Biology and Evolution Pub Date : 2025-07-22 DOI: 10.1093/gbe/evaf147

Noah Bourne, Nathanael Walker-Hale, Luke Dunning, Guillaume Chomicki

{"title":"Domestication Reduces Plant Immune Receptor Gene Repertoires Across Lineages.","authors":"Noah Bourne, Nathanael Walker-Hale, Luke Dunning, Guillaume Chomicki","doi":"10.1093/gbe/evaf147","DOIUrl":"https://doi.org/10.1093/gbe/evaf147","url":null,"abstract":"Plant domestication is sometimes associated with a reduction in the diversity of immune receptor genes (IRGs), critical for pathogen recognition and defence. Yet, the extent and evolutionary forces driving this pattern remain unclear. Using a comparative genomics framework, we analysed the IRG repertoires of 15 domesticated crop species and their wild relatives, representing nine plant families. We examined both cell-surface pattern recognition receptors (PRRs) and intracellular nucleotide-binding leucine-rich repeat receptors (NLRs). Our results show that five crops-grapes, mandarins, rice, barley and yellow sarson-exhibited significantly reduced IRG repertoires compared to their wild counterparts; however, the overall rate of IRG loss reflected the background rate of gene loss. Despite this, there is a positive association between domestication duration and IRG loss. Together these results suggest that domestication imposes a subtle, cumulative pressure, consistent with relaxed selection rather than a strong cost-of-resistance effect. This study provides insights into how domestication impacts plant immunity, with implications for future crop breeding strategies to enhance disease resistance.","PeriodicalId":12779,"journal":{"name":"Genome Biology and Evolution","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-07-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144682458","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Population Genomics of Giant Mice from the Faroe Islands: Hybridization, Colonization, and a Novel Challenge to Identifying Genomic Targets of Selection. 法罗群岛巨鼠的种群基因组学：杂交、定植和鉴定基因组选择目标的新挑战。

IF 3.2 2区生物学

Genome Biology and Evolution Pub Date : 2025-07-12 DOI: 10.1093/gbe/evaf141

Bret A Payseur, Peicheng Jing, Emma K Howell, Megan E Frayer, Eleanor P Jones, Eyðfinn Magnussen, Jens-Kjeld Jensen, Yingguang Frank Chan, Jeremy B Searle

{"title":"Population Genomics of Giant Mice from the Faroe Islands: Hybridization, Colonization, and a Novel Challenge to Identifying Genomic Targets of Selection.","authors":"Bret A Payseur, Peicheng Jing, Emma K Howell, Megan E Frayer, Eleanor P Jones, Eyðfinn Magnussen, Jens-Kjeld Jensen, Yingguang Frank Chan, Jeremy B Searle","doi":"10.1093/gbe/evaf141","DOIUrl":"10.1093/gbe/evaf141","url":null,"abstract":"Populations that colonize islands provide unique insights into demography, adaptation, and the spread of invasive species. House mice on the Faroe Islands evolved exceptionally large bodies after colonization, generating longstanding interest from biologists. To reconstruct the evolutionary history of these mice, we sequenced genomes of population samples from three Faroe Islands (Sandoy, Nólsoy, and Mykines) and Norway as a mainland comparison. Mice from the Faroe Islands are hybrids between the subspecies Mus musculus domesticus and M. m. musculus, with ancestry alternating along the genome. Analyses based on the site frequency spectrum of single nucleotide polymorphisms and the ancestral recombination graph (ARG) indicate that mice arrived on the Faroe Islands on a timescale consistent with transport by Norwegian Vikings, with colonization of Sandoy likely preceding colonization of Nólsoy. Substantial reductions in nucleotide diversity and effective population size associated with colonization suggest that mice on the Faroe Islands evolved large body size during periods of heightened genetic drift. Genomic scans for positive selection uncover windows with unusual site frequency spectra, but this pattern is mostly generated by clusters of singletons in individual mice. Three genomic regions show evidence for selection on islands based on the ARG, including variants located in transcription factor binding sites. Our findings reveal a dynamic evolutionary history for the enigmatic mice from Faroe Island and emphasize the challenges that accompany population genomic inferences in island populations.","PeriodicalId":12779,"journal":{"name":"Genome Biology and Evolution","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-07-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144617242","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

From macro to micro: De novo genomes of Aedes mosquitoes enable comparative genomics among close and distant relatives. 从宏观到微观：伊蚊的从头基因组使近亲和远亲之间的比较基因组学成为可能。

IF 3.2 2区生物学

Genome Biology and Evolution Pub Date : 2025-07-12 DOI: 10.1093/gbe/evaf142

Gen Morinaga, Darío Balcazar, Athanase Badolo, Diana Iyaloo, Luciano Tantely, Theo Mouillaud, Maria Sharakhova, Scott M Geib, Christophe Paupy, Diego Ayala, Jeffrey R Powell, Andrea Gloria-Soria, John Soghigian

{"title":"From macro to micro: De novo genomes of Aedes mosquitoes enable comparative genomics among close and distant relatives.","authors":"Gen Morinaga, Darío Balcazar, Athanase Badolo, Diana Iyaloo, Luciano Tantely, Theo Mouillaud, Maria Sharakhova, Scott M Geib, Christophe Paupy, Diego Ayala, Jeffrey R Powell, Andrea Gloria-Soria, John Soghigian","doi":"10.1093/gbe/evaf142","DOIUrl":"10.1093/gbe/evaf142","url":null,"abstract":"The yellow fever mosquito (Aedes aegypti) is an organism of high medical importance because it is the primary vector for diseases such as yellow fever, Zika, dengue, and chikungunya. Its medical importance has made it a subject of numerous efforts to understand their biology. One such effort, was the development of a high-quality reference genome (AaegL5). However, this reference genome was sourced from a highly inbred laboratory strain with unknown geographic origin. Thus, the reference is not representative of a wild mosquito, let alone one from its native range in sub-Saharan Africa. To better understand the genetic architecture of Ae. aegypti and their sister species, we developed two de novo chromosome-scale genomes with sequences sourced from single individuals: one of Ae. aegypti formosus (Aaf) from Burkina Faso and one of Ae. mascarensis (Am) from Mauritius. Both genomes exhibit high contiguity and gene completeness, comparable to AaegL5. While Aaf exhibits high degree of synteny to AaegL5, it also exhibits several large inversions. We also conducted comparative genomic analyses using our genomes and other publicly available culicid reference genomes to find extensive chromosomal rearrangements between major lineages. The expanded gene families common to Aaf, AaegL5, and Am revealed that while the overarching category of genes that have expanded are similar, the specific genes that have expanded differ. Our findings elucidate novel insights into chromosome evolution at both microevolutionary and macroevolutionary scales. The genomic resources we present are additions to a growing arsenal for biologists in understanding mosquito biology and genome evolution.","PeriodicalId":12779,"journal":{"name":"Genome Biology and Evolution","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-07-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144617240","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0