scholarly journals Leap‐frog dispersal and mitochondrial introgression: Phylogenomics and biogeography ofLimnonectesfanged frogs in the Lesser Sundas Archipelago of Wallacea

2019 ◽  
Vol 46 (4) ◽  
pp. 757-769 ◽  
Author(s):  
Sean B. Reilly ◽  
Alexander L. Stubbs ◽  
Benjamin R. Karin ◽  
Ke Bi ◽  
Evy Arida ◽  
...  
2015 ◽  
Vol 93 ◽  
pp. 63-76 ◽  
Author(s):  
Jin-Hua Ran ◽  
Ting-Ting Shen ◽  
Wen-Juan Liu ◽  
Pei-Pei Wang ◽  
Xiao-Quan Wang

2004 ◽  
Vol 18 (1) ◽  
pp. 25-37 ◽  
Author(s):  
B. Pesson ◽  
J. S. Ready ◽  
I. Benabdennbi ◽  
J. Martin-Sanchez ◽  
S. Esseghir ◽  
...  

2015 ◽  
Vol 29 (4) ◽  
pp. 386 ◽  
Author(s):  
Cibele Bragagnolo ◽  
Ricardo Pinto-da-Rocha ◽  
Manuel Antunes ◽  
Ronald M. Clouse

We used DNA sequence data to test the morphology-based taxonomy and examine the biogeography of the Brazilian Atlantic Rain Forest genus Promitobates. Most species are well differentiated morphologically, and a previous morphological phylogeny recovered the genus as monophyletic. However, some of these species have overlapping geographical distributions and considerable intraspecific variation, perhaps representing a species complex. Mitochondrial (12S rRNA and COI) and nuclear (ITS2 and 28S) genes were sequenced from 132 specimens collected from 27 localities. The results are consistent with significant mitochondrial introgression among the species P. ornatus, P. hatschbachi, P. lager, P. bellus and P. intermedius (the ‘P. ornatus species complex’), with one specimen identified as a hybrid between P. nigripes and this complex. A phylogeographic study of the complex was conducted using mitochondrial haplotypes. This revealed remarkably poor dispersal among populations, with only one case of a shared haplotype, and very low genetic diversity. The phylogeny showed a clear break between populations on either side of a narrow region of forest, suggesting an important historical event separated these lineages in the genus. The analyses also pointed to population breaks that date back several millions of years or extremely small effective population sizes, depending on the mutation rate.


2018 ◽  
Vol 8 (1) ◽  
Author(s):  
Roberta Bisconti ◽  
Daniele Porretta ◽  
Paola Arduino ◽  
Giuseppe Nascetti ◽  
Daniele Canestrelli

2016 ◽  
Vol 6 (10) ◽  
pp. 3280-3288 ◽  
Author(s):  
Sarah M. Mitchell ◽  
Laura K. Muehlbauer ◽  
Steven Freedberg

2017 ◽  
Vol 269 ◽  
pp. 89-99 ◽  
Author(s):  
Stefano Cannicci ◽  
Christoph D. Schubart ◽  
Gianna Innocenti ◽  
Farid Dahdouh-Guebas ◽  
Adnan Shahdadi ◽  
...  

2020 ◽  
Author(s):  
Rebecca S. Taylor ◽  
Ashley C. Bramwell ◽  
Rute Clemente-Carvalho ◽  
Nicholas A. Cairns ◽  
Frances Bonier ◽  
...  

ABSTRACTThe golden-crowned (Zonotrichia atricapilla) and white-crowned (Z. leucophrys) sparrows have been presented as a compelling case for rapid speciation. They display divergence in song and plumage with overlap in their breeding ranges implying reproductive isolation, but have almost identical mitochondrial genomes. Previous research proposed hybridization and subsequent mitochondrial introgression as an alternate explanation, but lacked robust nuclear gene trees to distinguish between introgression and incomplete lineage sorting. We test for signatures of these processes between Z. atricapilla and Z. leucophrys, and investigate the relationships among Z. leucophrys subspecies, using mitochondrial sequencing and a reduced representation nuclear genomic dataset. Contrary to the paraphyly evident in mitochondrial gene trees, we confirmed the reciprocal monophyly of Z. atricapilla and Z. leucophrys using large panels of single nucleotide polymorphism (SNPs). The pattern of cytonuclear discordance is consistent with limited, historical hybridization and mitochondrial introgression, rather than a recent origin and incomplete lineage sorting between recent sister species. We found evidence of nuclear phylogeographic structure within Z. leucophrys with two distinct clades. Altogether, our results support the true species status of Z. atricapilla and Z. leucophrys, and indicate deeper divergences between the two species than inferred using mitochondrial markers. Our results demonstrate the limitations of relying solely on mitochondrial DNA for taxonomy, and raise questions about the possibility of selection on the mitochondrial genome during temperature oscillations (e.g. during the Pleistocene). Historical mitochondrial introgression facilitated by past environmental changes could cause erroneous dating of lineage splitting in other taxa when based on mitochondrial DNA alone.


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