IF 3.1 2区生物学

Heredity Pub Date : 2024-12-01 DOI: 10.1038/s41437-024-00736-8

Deanne Cummins, Michael S Johnson, Joseph L Tomkins, W Jason Kennington

{"title":"Multigenerational hybridisation results in heterosis and facilitates adaptive introgression, with no evidence of outbreeding depression in a pair of marine gastropods.","authors":"Deanne Cummins, Michael S Johnson, Joseph L Tomkins, W Jason Kennington","doi":"10.1038/s41437-024-00736-8","DOIUrl":"https://doi.org/10.1038/s41437-024-00736-8","url":null,"abstract":"Anthropogenic environmental changes continue to threaten species globally. For example, translocation of species has caused unintentional hybridisation, which has contributed to species declines. On the other hand, hybridisation can be used to increase the evolutionary potential of species vulnerable to rapid environmental change, although the benefits of mixing genetically divergent lineages do not come without risks to individual fitness and the long-term viability of populations. Here, we use a combination of genome-wide Single Nucleotide Polymorphism (SNP) markers, mitochondrial DNA sequencing and measurements of growth rate to determine the genetic consequences of hybridisation between two congeneric marine gastropods across 27 years (~18 generations). Multigeneration hybridisation resulted from the introduction of the intertidal periwinkle Bembicium vittatum (a direct developer) into the native range of its congener Bembicium auratum (a species with planktotrophic larval dispersal). Despite significant genetic divergence between the species, we found no direct evidence of outbreeding depression in the admixed population. Instead, we found evidence for heterosis, which dissipated over time. After an initial lag, the frequency of introduced B. vittatum alleles declined dramatically in the hybrid population. However, a few B. vittatum alleles (3.18%) increased significantly in frequency against the overall trend, providing evidence of adaptive introgression. In the context of hybridisation as a conservation management tool, our results provide some evidence of the potential benefits that can be gained, and suggest that the costs due to outbreeding depression can be small.","PeriodicalId":12991,"journal":{"name":"Heredity","volume":" ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142768556","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 wide range of chromosome numbers result from unreduced gamete production in Brassica juncea × B. napus (AABC) interspecific hybrids.

IF 3.1 2区生物学

Heredity Pub Date : 2024-11-30 DOI: 10.1038/s41437-024-00738-6

Charles Addo Nyarko, Elvis Katche, Mariana Báez, Zhenling Lv, Annaliese S Mason

{"title":"A wide range of chromosome numbers result from unreduced gamete production in Brassica juncea × B. napus (AABC) interspecific hybrids.","authors":"Charles Addo Nyarko, Elvis Katche, Mariana Báez, Zhenling Lv, Annaliese S Mason","doi":"10.1038/s41437-024-00738-6","DOIUrl":"https://doi.org/10.1038/s41437-024-00738-6","url":null,"abstract":"The establishment of successful interspecies hybrids requires restoration of a stable \"2n\" chromosome complement which can produce viable \"n\" gametes. This may occur (rarely) via recombination between non-homologous chromosomes, or more commonly is associated with a doubling of parental chromosome number to produce new homologous pairing partners in the hybrid. The production of unreduced \"2n\" gametes (gametes with the somatic chromosome number) may therefore be evolutionarily useful by serving as a key pathway for the formation of new polyploid hybrids, as might specific mechanisms permitting recombination between non-homologous chromosomes. Here, we investigated chromosome complements and fertility in third generation interspecific hybrids (AABC) resulting from a cross between allopolyploids Brassica juncea (AABB) × B. napus (AACC) followed by self-pollination for two generations. Chromosome numbers ranged from 2n = 48-74 in the experimental population (35 plants), with 9-16 B genome chromosomes and up to 4 copies of A genome chromosomes. Unreduced gamete production leading to a putative genome structure of approximately AAAABBCC was hence predicted to explain the high chromosome numbers observed. Additionally, the estimation of nuclei number in post-meiotic sporads revealed a higher frequency of unreduced gametes (0.04-5.21%) in the third generation AABC interspecific hybrids compared to the parental Brassica juncea (0.07%) and B. napus (0.13%). Our results suggest that unreduced gamete production in the subsequent generations following interspecific hybridization events may play a critical role in restoration of more stable, fertile chromosome complements.","PeriodicalId":12991,"journal":{"name":"Heredity","volume":" ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2024-11-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142768554","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

Multi-population GWAS detects robust marker associations in a newly established six-rowed winter barley breeding program.

IF 3.1 2区生物学

Heredity Pub Date : 2024-11-28 DOI: 10.1038/s41437-024-00733-x

Cathrine Kiel Skovbjerg, Pernille Sarup, Ellen Wahlström, Jens Due Jensen, Jihad Orabi, Lotte Olesen, Just Jensen, Ahmed Jahoor, Guillaume Ramstein

{"title":"Multi-population GWAS detects robust marker associations in a newly established six-rowed winter barley breeding program.","authors":"Cathrine Kiel Skovbjerg, Pernille Sarup, Ellen Wahlström, Jens Due Jensen, Jihad Orabi, Lotte Olesen, Just Jensen, Ahmed Jahoor, Guillaume Ramstein","doi":"10.1038/s41437-024-00733-x","DOIUrl":"https://doi.org/10.1038/s41437-024-00733-x","url":null,"abstract":"Genome-wide association study (GWAS) is a powerful tool for identifying marker-trait associations that can accelerate breeding progress. Yet, its power is typically constrained in newly established breeding programs where large phenotypic and genotypic datasets have not yet accumulated. Expanding the dataset by inclusion of data from well-established breeding programs with many years of phenotyping and genotyping can potentially address this problem. In this study we performed single- and multi-population GWAS on heading date and lodging in four barley breeding populations with varying combinations of row-type and growth habit. Focusing on a recently established 6-rowed winter (6RW) barley population, single-population GWAS hardly resulted in any significant associations. Nevertheless, the combination of the 6RW target population with other populations in multi-population GWAS detected four and five robust candidate quantitative trait loci for heading date and lodging, respectively. Of these, three remained undetected when analysing the combined populations individually. Further, multi-population GWAS detected markers capturing a larger proportion of genetic variance in 6RW. For multi-population GWAS, we compared the findings of a univariate model (MP1) with a multivariate model (MP2). While both models surpassed single-population GWAS in power, MP2 offered a significant advantage by having more realistic assumptions while pointing towards robust marker-trait associations across populations. Additionally, comparisons of GWAS findings for MP2 and single-population GWAS allowed identification of population-specific loci. In conclusion, our study presents a promising approach to kick-start genomics-based breeding in newly established breeding populations.","PeriodicalId":12991,"journal":{"name":"Heredity","volume":" ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2024-11-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142750814","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

The genetic origins of species boundaries at subtropical and temperate ecoregions in the North American racers (Coluber constrictor).

IF 3.1 2区生物学

Heredity Pub Date : 2024-11-28 DOI: 10.1038/s41437-024-00737-7

Frank T Burbrink, Edward A Myers

{"title":"The genetic origins of species boundaries at subtropical and temperate ecoregions in the North American racers (Coluber constrictor).","authors":"Frank T Burbrink, Edward A Myers","doi":"10.1038/s41437-024-00737-7","DOIUrl":"https://doi.org/10.1038/s41437-024-00737-7","url":null,"abstract":"Phylogeographically structured lineages are a common outcome of range-wide population genetic studies. In the southeastern United States, disconnection between populations found at the intersection of the southeastern coastal plains of peninsular Florida and the southeastern plains of the adjacent continent is readily apparent among many plants and animals. However, the timing and maintenance of species boundaries between these distinctly different subtropical and temperate regions remains unknown for all organisms studied there. Using genome-scale data, we examine the timing of origins, gene flow, and the movement of genes under selection in unique ecoregions within the North American racers (Coluber constrictor). Isolation-migration models along with tests of genome-wide selection, locus-environment associations, and spatial and genomic clines demonstrate that two unrecognized species are present and are in contact at the boundary of these two ecoregions. We show that selection at several loci associated with unique environments have maintained species boundaries despite constant levels of gene flow between these lineages over thousands of generations. This research provides a new avenue of research to examine speciation processes in poorly studied biodiversity hotspots.","PeriodicalId":12991,"journal":{"name":"Heredity","volume":" ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2024-11-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142750770","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

Disentangling the worldwide invasion process of Halyomorpha halys through approximate Bayesian computation. 通过近似贝叶斯计算厘清Halyomorpha halys的全球入侵过程

IF 3.1 2区生物学

Heredity Pub Date : 2024-11-18 DOI: 10.1038/s41437-024-00735-9

Rajiv Boscolo Agostini, Maria Teresa Vizzari, Andrea Benazzo, Silvia Ghirotto

{"title":"Disentangling the worldwide invasion process of Halyomorpha halys through approximate Bayesian computation.","authors":"Rajiv Boscolo Agostini, Maria Teresa Vizzari, Andrea Benazzo, Silvia Ghirotto","doi":"10.1038/s41437-024-00735-9","DOIUrl":"10.1038/s41437-024-00735-9","url":null,"abstract":"Halyomorpha halys is a polyphagous insect pest, which was first found outside its native regions in 1996, and since then it has rapidly spread worldwide causing damage to agriculture. Investigating the genetic diversity among H. halys populations is essential to understand the colonization history out of its native areas. Analyses based on mtDNA indicate multiple invasions from Asia to European and American continents, as well as serial invasions within invaded countries, but the colonization dynamics are still debated. Recently, genome-wide data (ddRAD) have been published to investigate the genomic structure of H. halys, proposing China as a putative source of multiple serial invasion events to Europe and the Americas. In this study we re-analyze published ddRAD sequences from worldwide populations of H. halys to better elucidate the colonization process. We assessed the genetic diversity in native populations identifying genetic differentiation between populations in China. Furthermore, we observed a complex pattern of population structure in the invaded countries, that may have originated from the occurrence of multiple independent colonization waves through time, from sub-populations present in the native range to Europe and the Americas. We tested alternative colonization hypotheses through Approximate Bayesian Computation comparison of demographic scenarios. Our results support multiple waves of migration from East China to invaded territories and the occurrence of European and American bridgehead effects. These results underline the importance of demographic inference through genome-wide data to investigate biological invasions, whose knowledge become fundamental to establish new strategies of management and control of invasive species.","PeriodicalId":12991,"journal":{"name":"Heredity","volume":" ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2024-11-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142667325","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

Genome-wide local ancestry and the functional consequences of admixture in African and European cattle populations. 非洲和欧洲牛群的全基因组地方祖先和混血的功能性后果。

IF 3.1 2区生物学

Heredity Pub Date : 2024-11-08 DOI: 10.1038/s41437-024-00734-w

Gillian P McHugo, James A Ward, Said Ismael Ng'ang'a, Laurent A F Frantz, Michael Salter-Townshend, Emmeline W Hill, Grace M O'Gorman, Kieran G Meade, Thomas J Hall, David E MacHugh

{"title":"Genome-wide local ancestry and the functional consequences of admixture in African and European cattle populations.","authors":"Gillian P McHugo, James A Ward, Said Ismael Ng'ang'a, Laurent A F Frantz, Michael Salter-Townshend, Emmeline W Hill, Grace M O'Gorman, Kieran G Meade, Thomas J Hall, David E MacHugh","doi":"10.1038/s41437-024-00734-w","DOIUrl":"https://doi.org/10.1038/s41437-024-00734-w","url":null,"abstract":"Bos taurus (taurine) and Bos indicus (indicine) cattle diverged at least 150,000 years ago and, since that time, substantial genomic differences have evolved between the two lineages. During the last two millennia, genetic exchange in Africa has resulted in a complex tapestry of taurine-indicine ancestry, with most cattle populations exhibiting varying levels of admixture. Similarly, there are several Southern European cattle populations that also show evidence for historical gene flow from indicine cattle, the highest levels of which are found in the Central Italian White breeds. Here we use two different software tools (MOSAIC and ELAI) for local ancestry inference (LAI) with genome-wide high- and low-density SNP array data sets in hybrid African and residually admixed Southern European cattle populations and obtained broadly similar results despite critical differences in the two LAI methodologies used. Our analyses identified genomic regions with elevated levels of retained or introgressed ancestry from the African taurine, European taurine, and Asian indicine lineages. Functional enrichment of genes underlying these ancestry peaks highlighted biological processes relating to immunobiology and olfaction, some of which may relate to differing susceptibilities to infectious diseases, including bovine tuberculosis, East Coast fever, and tropical theileriosis. Notably, for retained African taurine ancestry in admixed trypanotolerant cattle we observed enrichment of genes associated with haemoglobin and oxygen transport. This may reflect positive selection of genomic variants that enhance control of severe anaemia, a debilitating feature of trypanosomiasis disease, which severely constrains cattle agriculture across much of sub-Saharan Africa.","PeriodicalId":12991,"journal":{"name":"Heredity","volume":" ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2024-11-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142619107","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

Estimation of Jacquard's genetic identity coefficients with bi-allelic variants by constrained least-squares. 通过约束最小二乘法估算具有双等位基因变异的雅克遗传特征系数。

IF 3.1 2区生物学

Heredity Pub Date : 2024-11-07 DOI: 10.1038/s41437-024-00731-z

Jan Graffelman, Bruce S Weir, Jérôme Goudet

引用次数: 0

Desert landscape features influencing the microgeographic genetic structure of Nelson's pocket mouse Chaetodipus nelsoni. 影响纳尔逊袋鼠（Chaetodipus nelsoni）微地理遗传结构的沙漠景观特征。

IF 3.1 2区生物学

Heredity Pub Date : 2024-11-02 DOI: 10.1038/s41437-024-00732-y

Gissella Pineda-Sánchez, Ella Vázquez-Domínguez

{"title":"Desert landscape features influencing the microgeographic genetic structure of Nelson's pocket mouse Chaetodipus nelsoni.","authors":"Gissella Pineda-Sánchez, Ella Vázquez-Domínguez","doi":"10.1038/s41437-024-00732-y","DOIUrl":"https://doi.org/10.1038/s41437-024-00732-y","url":null,"abstract":"Elucidating the factors that drive the genetic patterns of natural populations is key in evolutionary biology, ecology and conservation. Hence, it is crucial to understand the role that environmental features play in species genetic diversity and structure. Landscape genetics measures functional connectivity and evaluates the effects of landscape composition, configuration, and heterogeneity on microevolutionary processes. Deserts constitute one of the world's most widespread biomes and exhibit a striking heterogeneity of microhabitats, yet few landscape genetics studies have been performed with rodents in deserts. We evaluated the relationship between landscape and functional connectivity, at a microgeographic scale, of the Nelson's pocket mouse Chaetodipus nelsoni in the Mapimí Biosphere Reserve (Chihuahuan desert). We used single-nucleotide polymorphisms and characterized the landscape based on on-site environmental data and from Landsat satellite images. We identified two distinct genetic clusters shaped by elevation, vegetation and soil. High elevation group showed higher connectivity in the elevated zones (1250-1350 m), with scarce vegetation and predominantly rocky soils; whereas that of Low elevation group was at <1200 m, with denser vegetation and sandy soils. These genetic patterns are likely associated with the species' locomotion type, feeding strategy and building of burrows. Interestingly, we also identified morphological differences, where hind foot size was significantly smaller in individuals from High elevation compared to Low elevation, suggesting the possibility of ecomorphs associated with habitat differences and potential local adaptation processes, which should be explored further. These findings improve our understanding of the genetics and ecology of C. nelsoni and other desert rodents.","PeriodicalId":12991,"journal":{"name":"Heredity","volume":" ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2024-11-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142564370","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

Correction: Stem cell transcriptional profiles from mouse subspecies reveal cis-regulatory evolution at translation genes 更正：小鼠亚种的干细胞转录图谱揭示了翻译基因的顺式调控进化。

IF 3.1 2区生物学

Heredity Pub Date : 2024-10-24 DOI: 10.1038/s41437-024-00730-0

Noah M. Simon, Yujin Kim, Joost Gribnau, Diana M. Bautista, James R. Dutton, Rachel B. Brem

引用次数: 0

The evolution and maintenance of trioecy with cytoplasmic male sterility. 具有细胞质雄性不育性的三雄性花的进化和维持。

IF 3.1 2区生物学

Heredity Pub Date : 2024-10-14 DOI: 10.1038/s41437-024-00729-7

M T Nguyen, J R Pannell

{"title":"The evolution and maintenance of trioecy with cytoplasmic male sterility.","authors":"M T Nguyen, J R Pannell","doi":"10.1038/s41437-024-00729-7","DOIUrl":"https://doi.org/10.1038/s41437-024-00729-7","url":null,"abstract":"Trioecy, the co-existence of females, males and hermaphrodites, is a rare sexual system in plants that may be an intermediate state in transitions between hermaphroditism and dioecy. Previous models have identified pollen limitation as a necessary condition for the evolution of trioecy from hermaphroditism. In these models, the seed-production and pollen production of females and males relative to those of hermaphrodites, respectively, are compromised by self-fertilization by hermaphrodites under pollen- limitation. Here, we investigate the evolution of trioecy via the invasion of cytoplasmic male sterility (CMS) into androdioecious populations in which hermaphrodites co-occur with males and where the male determiner is linked to a (partial) fertility restorer. We show that the presence of males in a population renders invasion by CMS more difficult. However, the presence of males also facilitates the maintenance of trioecy even in the absence of pollen limitation by negative frequency-dependent selection, because males reduce the transmission of CMS by females by siring sons (which cannot transmit CMS). We discuss our results in light of empirical observations of trioecy in plants and its potential role in the evolution of dioecy.","PeriodicalId":12991,"journal":{"name":"Heredity","volume":" ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2024-10-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142464083","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

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