Positive selection in gamete interaction proteins in Carnivora DOI Creative Commons
Francisco Pisciottano,

Clara Campos,

Clementina Penna

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2022, Номер unknown

Опубликована: Март 25, 2022

Abstract The absence of robust interspecific isolation barriers among pantherines, including the iconic South American jaguar ( Panthera onca ), led us to study molecular evolution typically rapidly evolving reproductive proteins within this subfamily and related groups. In study, we delved into evolutionary forces acting on Zona Pellucida (ZP) gamete interaction protein family sperm-oocyte fusion pair IZUMO1-JUNO across Carnivora order, distinguishing between Caniformia Feliformia suborders anticipating few significant diversifying changes in Pantherinae subfamily. A chromosome-resolved genome assembly facilitated coding sequences, enabling reconstruction histories. Examining sequence variability more than 30 species revealed that exhibited significantly lower diversity compared its sister taxa, . Molecular analyses ZP2 ZP3, subunits directly involved sperm-recognition, unveiled positive selection , although no were linked sperm binding. Structural cross-linking ZP subunits, ZP4, ZP1 levels or complete selection. Notably, IZUMO1 displayed prominent signatures sites basal lineages both extending along subtree but absent Conversely, JUNO did not exhibit any tested clades. Eight Caniformia-specific selected detected two JUNO-interaction clusters. Our findings provide for first time insights trajectories order.

Язык: Английский

Positive selection in gamete interaction proteins in Carnivora DOI
Francisco Pisciottano,

María Clara Campos,

Clementina Penna

и другие.

Molecular Ecology, Год журнала: 2024, Номер 33(5)

Опубликована: Фев. 6, 2024

Abstract The absence of robust interspecific isolation barriers among pantherines, including the iconic South American jaguar ( Panthera onca ), led us to study molecular evolution typically rapidly evolving reproductive proteins within this subfamily and related groups. In study, we delved into evolutionary forces acting on zona pellucida (ZP) gamete interaction protein family sperm‐oocyte fusion pair IZUMO1‐JUNO across Carnivora order, distinguishing between Caniformia Feliformia suborders anticipating few significant diversifying changes in Pantherinae subfamily. A chromosome‐resolved genome assembly facilitated coding sequences, enabling reconstruction histories. Examining sequence variability more than 30 species revealed that exhibited significantly lower diversity compared its sister taxa, . Molecular analyses ZP2 ZP3, subunits directly involved sperm‐recognition, unveiled positive selection , although no were linked sperm binding. Structural cross‐linking ZP subunits, ZP4 ZP1 levels or complete selection. Notably, IZUMO1 displayed prominent signatures sites basal lineages both extending along subtree but absent Conversely, JUNO did not exhibit any tested clades. Eight Caniformia‐specific selected detected two JUNO‐interaction clusters. Our findings provide for first time insights trajectories order.

Язык: Английский

Процитировано

5
Exploring the evolution of sex determination related genes through a cross-species genomics analysis DOI Creative Commons
Filippo Nicolini, Sergey V. Nuzhdin, Fabrizio Ghiselli

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2025, Номер unknown

Опубликована: Янв. 31, 2025

Abstract The molecular basis of sex determination (SD), while being extensively studied in model organisms, remains poorly understood many animal groups. Bivalves, a diverse class molluscs with variety reproductive modes, represent an ideal yet challenging clade for investigating SD and the evolution sexual systems. However, absence comprehensive framework has limited progress this field, particularly regarding study sex-determination related genes (SRGs). In study, we performed genome-wide sequence evolutionary analysis Dmrt, Sox, Fox gene families more than 40 bivalve species. For first time, provide extensive phylogenetic-aware dataset these SRGs, find support to hypothesis that Dmrt-1L Sox-H may act as primary sex-determining genes, by showing their high levels diversity within genomic context. To validate our findings, same two well-characterized systems, mammals Drosophila . former, found male Sry exhibits pattern amino acid similar bivalves, consistent its role master regulator. contrast, no such was observed among fruit fly cascade, which is controlled chromosomic mechanism. Overall, findings highlight similarities some mammal possibly driven comparable architecture cascades. This work underscores once again importance employing comparative approach when understudied non-model

Язык: Английский

Процитировано

0
The value of hybrid genomes: Building two highly contiguous reference genome assemblies to advance Canis genomic studies DOI
Kevin R. Bredemeyer, Bridgett M. vonHoldt, Nicole M. Foley

и другие.

Journal of Heredity, Год журнала: 2024, Номер 115(4), С. 480 - 486

Опубликована: Фев. 28, 2024

Abstract Previous studies of canid population and evolutionary genetics have relied on high-quality domestic dog reference genomes that been produced primarily for biomedical trait mapping in breeds. However, the absence highly contiguous from other Canis species like gray wolf coyote, represent additional distinct demographic histories, may bias inferences regarding interspecific genetic diversity phylogenetic relationships. Here, we present single haplotype de novo genome assemblies generated by applying trio-binning approach to long sequence reads a female first-generation hybrid coyote mating. The were contiguous, with contig N50 sizes 44.6 42.0 Mb respectively. Genome scaffolding alignments between two published showed near complete collinearity, one exception: coyote-specific chromosome fission 13 fusion proximal portion 8, retaining Canis-typical haploid number 2n = 78. We evaluated quality previous RADseq data 334 canids found nearly identical patterns among regional populations regardless used alignment (dog, or wolf). These novel will be important resources proper accurate inference demography, taxonomic evaluation, conservation genetics.

Язык: Английский

Процитировано

3
Extensive Phylogenomic Discordance and the Complex Evolutionary History of the Neotropical Cat Genus Leopardus DOI Creative Commons
Jonas Lescroart, Alejandra Bonilla-Sánchez, Constanza Napolitano

и другие.

Molecular Biology and Evolution, Год журнала: 2023, Номер 40(12)

Опубликована: Ноя. 21, 2023

Even in the genomics era, phylogeny of Neotropical small felids comprised genus Leopardus remains contentious. We used whole-genome resequencing data to construct a time-calibrated consensus this group, quantify phylogenomic discordance, test for interspecies introgression, and assess patterns genetic diversity demographic history. infer that radiation started Early Pliocene as an initial speciation burst, followed by another its subgenus Oncifelis during Pleistocene. Our findings challenge long-held notion ocelot (Leopardus pardalis) margay (L. wiedii) are sister species instead indicate is most closely related enigmatic Andean cat jacobita), whose reported here first time. In addition, we found newly sampled tiger tigrinus pardinoides) population from Colombia associates with Central American cats oncilla). Genealogical discordance was largely attributable incomplete lineage sorting, yet augmented strong gene flow between ancestral branch Oncifelis, well Geoffroy's geoffroyi) southern guttulus). Contrasting trajectories have led disparate levels current genomic diversity, nearly tenfold difference heterozygosity ocelot, spanning entire range variability extant felids. analyses improved our understanding history felid radiation, highlight benefits inference embracing many heterogeneous signals scattered across genome.

Язык: Английский

Процитировано

8
Ancestry dynamics and trait selection in a designer cat breed DOI
Christopher B. Kaelin,

Kelly A. McGowan,

Anthony D. Hutcherson

и другие.

Current Biology, Год журнала: 2024, Номер 34(7), С. 1506 - 1518.e7

Опубликована: Март 25, 2024

Язык: Английский

Процитировано

2
A chromosome-scale fishing cat reference genome for the evaluation of potential germline risk variants DOI Creative Commons
Rachel A. Carroll, Edward S. Rice, William J. Murphy

и другие.

Scientific Reports, Год журнала: 2024, Номер 14(1)

Опубликована: Апрель 5, 2024

Abstract The fishing cat, Prionailurus viverrinus , faces a population decline, increasing the importance of maintaining healthy zoo populations. Unfortunately, zoo-managed individuals currently face high prevalence transitional cell carcinoma (TCC), form bladder cancer. To investigate genetics inherited diseases among captive cats, we present chromosome-scale assembly, generate pedigree population, reaffirm close genetic relationship with Asian leopard cat ( bengalensis ), and identify 7.4 million single nucleotide variants (SNVs) 23,432 structural (SVs) from whole genome sequencing (WGS) data TCC cats. Only BRCA2 was found to have recurrent number missense mutations in cats diagnosed when compared human cancer risk variants. These new genomic resources will aid conservation efforts improve their fitness enhance comparative study feline genomes.

Язык: Английский

Процитировано

2
Identification of Candidate Genes Related to Hybrid Sterility by Genomic Structural Variation and Transcriptome Analyses in Cattle-yak DOI Creative Commons

Rui-Dong Wan,

Xue Gao,

Guo-Wen Wang

и другие.

Journal of Dairy Science, Год журнала: 2024, Номер unknown

Опубликована: Окт. 1, 2024

Язык: Английский

Процитировано

2
Selection Signatures Reveal Candidate Genes for the Cornish Rex Breed-Specific Phenotype DOI Open Access
Minja Zorc,

Tajda Horvat,

Anja Tanšek

и другие.

Genes, Год журнала: 2024, Номер 15(3), С. 368 - 368

Опубликована: Март 16, 2024

Many coat color, behavioral and morphological traits are specific fixed across cat breeds, with several variants influencing these being common among different breeds. In the domestic cat, rexoid mutations have been documented in Cornish Rex, four bp deletion LPAR6 gene has found to cause a frame shift premature stop codon. addition coat, Rex cats also characteristic head, ear shape body type. Analysis of selection signatures genome revealed regions that under selective pressure. One is located CFA B4, region where ALX1 located. The Burmese disrupts cranial morphogenesis causes brachycephaly heterozygous state. our study, we confirmed presence 20 F1 hybrids between cat. However, did not confirm cats. Genome-wide signature analysis was performed using ROH islands integrated haplotype score (iHS) statistics based on publicly available SNP array data 11 were detected chromosomes A1, A3, C2, B1, B4 D1.

Язык: Английский

Процитировано

1
Reticulate evolution: Detection and utility in the phylogenomics era DOI Creative Commons

Saelin Bjornson,

Heroen Verbruggen, Nathan S. Upham

и другие.

Molecular Phylogenetics and Evolution, Год журнала: 2024, Номер 201, С. 108197 - 108197

Опубликована: Сен. 11, 2024

Язык: Английский

Процитировано

1
Toward telomere-to-telomere cat genomes for precision medicine and conservation biology DOI
William J. Murphy, Andrew J. Harris

Genome Research, Год журнала: 2024, Номер 34(5), С. 655 - 664

Опубликована: Май 1, 2024

Genomic data from species of the cat family Felidae promise to stimulate veterinary and human medical advances, clarify coherence genome organization. We describe how interspecies hybrids have been instrumental in genetic analysis cats, first maps propelling genomes toward T2T standard set by project. Genotype-to-phenotype mapping models has revealed dozens health-related variants, molecular basis for mammalian pigmentation patterning, species-specific adaptations. Improved genomic surveillance natural captive populations across tree will increase our understanding architecture traits, population dynamics, guide a future genome-enabled biodiversity conservation.

Язык: Английский

Процитировано

0