Understanding species limits through the formation of phylogeographic lineages DOI Creative Commons
Frank T. Burbrink, Edward A. Myers, R. Alexander Pyron

et al.

Ecology and Evolution, Journal Year: 2024, Volume and Issue: 14(10)

Published: Oct. 1, 2024

The outcomes of speciation across organismal dimensions (e.g., ecological, genetic, phenotypic) are often assessed using phylogeographic methods. At one extreme, reproductively isolated lineages represent easily delimitable species differing in many or all dimensions, and at the other, geographically distinct genetic segments introgress broad environmental gradients with limited phenotypic disparity. In ambiguous gray zone speciation, where genetically but still interacting ecologically, it is expected that these context ontology evolutionary concept when they maintained over time well-defined hybrid zones, particularly intersection environments. As a result, structure correlated differences not space alone, subset genes fail to zones as underlying genomic accumulate. We present set tests synthesize delimitation process. can thereby assess historical demographics diversification processes while understanding how through by exploring spatial genome clines, genotype-environment interactions, scans for selected loci. Employing eight lineage-pairs snakes North America, we show six pairs 12 "good" two local adaptation regional population structure. have signature divergence before near mid-Pleistocene, low migration, stable varying size, loci showing selection on alleles corresponding transitions between ecoregions. Locally adapted populations younger, exhibit higher less ecological differentiation. Our results demonstrate be delimited methods properly integrate spatial, temporal, data.

Language: Английский

Comparative Genomics Points to Ecological Drivers of Genomic Divergence Among Intertidal Limpets DOI Open Access
Emily C. Giles, Vanessa L. González,

Paulina Carimán

et al.

Molecular Ecology Resources, Journal Year: 2025, Volume and Issue: unknown

Published: Jan. 31, 2025

ABSTRACT Comparative genomic studies of closely related taxa are important for our understanding the causes divergence on a changing Earth. This being said, resources available marine intertidal molluscs limited and currently, there few publicly high‐quality annotated genomes species in general. Here we report transcriptome assemblies six Patellogastropoda genome annotations three these ( Scurria scurra , viridula zebrina ). analysis using suggest that recently diverging lineages (10–20 Mya) have experienced similar amounts contractions expansions but across different gene families. Furthermore, differences among diverged reflected variation amount coding noncoding material genomes, such as repetitive elements lengths transcripts introns exons. Additionally, functional ontologies species‐specific duplicated genes together with demographic inference support finding recent members genus aligns their unique ecological characteristics. Overall, presented here will be valuable future adaptation habitats whole.

Language: Английский

Citations

0
Phylogeography of the kelp-dwelling isopod Amphoroidea typa H. Milne Edwards (1840) along the coast of continental Chile DOI
Lapo Ragionieri,

Ariel O. Fierro,

Miguel Angel Penna-Díaz

et al.

Estuarine Coastal and Shelf Science, Journal Year: 2025, Volume and Issue: 317, P. 109168 - 109168

Published: Feb. 6, 2025

Language: Английский

Citations

0
Impact of persistent barrier to gene flow and catastrophic events on red algae evolutionary history along the Chilean coast DOI Creative Commons
Oscar R. Huanel,

Alejandro Montecinos,

Francisco Sepúlveda‐Espinoza

et al.

Frontiers in Genetics, Journal Year: 2024, Volume and Issue: 15

Published: March 8, 2024

Historical vicariance events, linked to the existence of stable physical barriers gene flow, generate concordant genetic breaks in co-distributed species while stochastic processes (e.g., costal uplift) could cause species-specific as a result local strong demographic bottlenecks or extinction. In Chile, previous studies show that area 30°S-33°S correspond barrier flow have affected structure various algae and marine invertebrates. Here we sequenced two organellar genes (COI rbcL) four taxonomically accepted red seaweeds characterized by low dispersal potential: Mazzaella laminarioides, M. membranacea, Asterfilopsis disciplinalis, Ahnfeltiopsis vermicularis . Our results revealed ten strongly differentiated linages taxa studied. Strong breaks, both space time (divergence estimated occurred some 2.9–12.4 million years ago), were observed between distributed across 33°S. Conversely, Central/South part Chilean coast, localization breaks/sub-structure varied widely (36°S, 38°S, 39°S, 40°S). These suggest major historical event has modeled several organisms north coast during mid-Miocene, more recent events drift be driving forces divergence/structuration central-southern coast.

Language: Английский

Citations

2
Comparative genomics points to ecological drivers of genomic divergence among intertidal limpets DOI
Emily C. Giles, Vanessa L. González,

Paulina Carimán

et al.

Authorea (Authorea), Journal Year: 2024, Volume and Issue: unknown

Published: Aug. 26, 2024

Comparative genomic studies of closely related taxa are important for our understanding the causes divergence on a changing Earth. This being said, resources available marine intertidal molluscs limited and currently, there few publicly high-quality annotated genomes habitats in general. Here we report transcriptome assemblies six species Patellogastropoda genome annotations three these (Scurria scurra, Scurria viridula, zebrina). analysis using suggest that was large gene family contraction during early evolutionary history (140-170 Mya) recently diverging lineages (10-20 have experienced similar amounts contractions expansions but across different families. Furthermore, differences among diverged reflected variation amount coding noncoding material genomes, such as repetitive elements lengths transcripts introns exons. Additionally, functional ontologies species-specific duplicated genes together with demographic inference support finding recent members genus aligns their unique ecological characteristics. Overall, presented here will be extremely valuable future adaptation whole.

Language: Английский

Citations

1
Oceanographical-driven dispersal and environmental variation explain genetic structure in an upwelling coastal ecosystem DOI Creative Commons
Lívia Peluso,

Juan Faúndez,

Sérgio A. Navarrete

et al.

Scientific Reports, Journal Year: 2024, Volume and Issue: 14(1)

Published: Sept. 20, 2024

The seascape comprises multiple environmental variables that interact with species biology to determine patterns of spatial genetic variation. environment imposes spatially variable selective forces together homogenizing and diverging drivers facilitate or restrict dispersal, which is a complex, time-dependent process. Understanding how the influences variation remains elusive, particularly in coastal upwelling systems. Here, we combine genome-wide SNP data, Lagrangian larval dispersal simulated over hydrodynamic model, ocean information quantify relative contribution circulation heterogeneity as structure two congeneric intertidal limpets, Scurria scurra S. araucana, along central coast Chile. We find break observed both limpet coincides connectivity shown by suggesting mean an important feature, particular for scurra. For appears better predictor than circulation. Overall, our study shows broad forcing on diversity contributes understanding complex ecological evolutionary interactions

Language: Английский

Citations

1
Discerning structure versus speciation in phylogeographic analysis of Seepage Salamanders (Desmognathus aeneus) using demography, environment, geography, and phenotype DOI Open Access
R. Alexander Pyron, Anvith Kakkera, David A. Beamer

et al.

Molecular Ecology, Journal Year: 2023, Volume and Issue: 33(2)

Published: Nov. 28, 2023

Abstract Numerous mechanisms can drive speciation, including isolation by adaptation, distance, and environment. These forces promote genetic phenotypic differentiation of local populations, the formation phylogeographic lineages, ultimately, completed speciation. However, conceptually similar may also result in stabilizing rather than diversifying selection, leading to lineage integration long‐term persistence population structure within genetically cohesive species. Processes that maintenance geographic diversity while facilitating high rates migration limiting thereby is not accompanied reproductive isolation. We suggest this framework be applied more broadly address classic dilemma “structure” versus “species” when evaluating diversity, unifying genetics, species delimitation, underlying study demonstrate one such instance Seepage Salamander ( Desmognathus aeneus ) from southeastern United States. Recent studies estimated up 6.3% mitochondrial divergence four phylogenomic lineages with broad admixture across hybrid zones, which could potentially represent distinct supported our species‐delimitation analyses. limited dispersal promotes substantial microhabitat specificity appears yield selection on a single, uniform, ecologically mediated phenotype. As result, climatic cycles recurrent contact between repeated instances through time. Subsequent hybridization apparently counteracted adaptive introgression, leaving single unified deeply divergent nonetheless do appear incipient

Language: Английский

Citations

3
Exploring evolutionary mechanisms of genomic divergence in Scurria limpets DOI Creative Commons

Paulina Carimán Soto,

Marie‐Laure Guillemin, Emily C. Giles

et al.

Research Square (Research Square), Journal Year: 2024, Volume and Issue: unknown

Published: Sept. 2, 2024

Abstract Decades of research in population genetics have revealed that genetic divergence between populations and species is not uniformly distributed throughout the genome, but rather exhibits a high degree heterogeneity. This phenomenon has sparked debate regarding evolutionary mechanisms responsible for this variability. study delves into patterns genomic three marine limpet species, Scurria scurra, araucana, ceciliana, which inhabit both sides two biogeographic breaks (30-34°S 41-43°S). To investigate this, was analyzed using estimates FST DXY with 20 kb sliding window approach across entire genomes 56 individuals. Highly divergent regions ranging from to 280 kilobases size were identified, primarily associated allopatric model all although significant signals gene flow observed some regions. Sympatric S. scurra spanning 30-34°S latitudinal range, exhibited heterogeneous patterns. In southernmost 41-43°S processes seem deeply affected architecture divergence. pattern expected an history being isolated glacial refugia. Genetic appears be species-specific, few shared regions, genes relevant lipid metabolism, response oxidative stress, mitochondrial functions identified within These findings highlight complexity diversification limpets.

Language: Английский

Citations

0
Understanding species limits through the formation of phylogeographic lineages DOI Creative Commons
Frank T. Burbrink, Edward A. Myers, R. Alexander Pyron

et al.

Ecology and Evolution, Journal Year: 2024, Volume and Issue: 14(10)

Published: Oct. 1, 2024

The outcomes of speciation across organismal dimensions (e.g., ecological, genetic, phenotypic) are often assessed using phylogeographic methods. At one extreme, reproductively isolated lineages represent easily delimitable species differing in many or all dimensions, and at the other, geographically distinct genetic segments introgress broad environmental gradients with limited phenotypic disparity. In ambiguous gray zone speciation, where genetically but still interacting ecologically, it is expected that these context ontology evolutionary concept when they maintained over time well-defined hybrid zones, particularly intersection environments. As a result, structure correlated differences not space alone, subset genes fail to zones as underlying genomic accumulate. We present set tests synthesize delimitation process. can thereby assess historical demographics diversification processes while understanding how through by exploring spatial genome clines, genotype-environment interactions, scans for selected loci. Employing eight lineage-pairs snakes North America, we show six pairs 12 "good" two local adaptation regional population structure. have signature divergence before near mid-Pleistocene, low migration, stable varying size, loci showing selection on alleles corresponding transitions between ecoregions. Locally adapted populations younger, exhibit higher less ecological differentiation. Our results demonstrate be delimited methods properly integrate spatial, temporal, data.

Language: Английский

Citations

0