Impact of Orogeny and Environmental Change on Genetic Divergence and Demographic History of Dipus sagitta (Dipodoidea, Dipodinae) since the Pliocene in Inland East Asia

2017 ◽  
Vol 26 (2) ◽  
pp. 253-266 ◽  
Author(s):  
Jilong Cheng ◽  
Xue Lv ◽  
Lin Xia ◽  
Deyan Ge ◽  
Qian Zhang ◽  
...  
2020 ◽  
Vol 10 (3) ◽  
pp. 1454-1468
Author(s):  
Tao Chen ◽  
Juan Chen ◽  
Ling Tang ◽  
Xiaoning Chen ◽  
Jun Yan ◽  
...  

2014 ◽  
Vol 62 (5) ◽  
pp. 438 ◽  
Author(s):  
Rohan Mellick ◽  
Peter D. Wilson ◽  
Maurizio Rossetto

The genetic disjunctions and distributions of long-lived species provide valuable signatures of past demographic response to environmental change. Here we use genetic markers to study two Elaeocarpus species from the Australian Wet Tropics to understand changes in palaeodistribution and demography associated with environmental change on either side of the Black Mountain Corridor (BMC). Contrasting the genetic structure of species with different distributions along altitudinal gradients is important to explore some of the environmental drivers of adaptive evolution. Using coalescent-based molecular and environmental niche models, we investigate the demographic history of two long-lived, altitudinally differentiated species that were previously identified as genetically divergent across the BMC. The origin of the genetic disjunction across the BMC is inferred to have occurred during the last glacial cycle in relation to 13 combined molecular histories of both plastid and nuclear loci. Interestingly, whereas midland populations show a dynamic history of expansion and contraction, the highland populations do not. Molecular history and environmental niche models show the populations north of the BMC have remained relatively stable over time in response to environmental change. Populations south of the BMC have been more dynamic in response to environmental change. These differences are likely to highlight the topographical character and environmental heterogeneity of areas separated by the BMC.


2019 ◽  
Vol 125 (1) ◽  
pp. 105-117 ◽  
Author(s):  
Yixuan Kou ◽  
Li Zhang ◽  
Dengmei Fan ◽  
Shanmei Cheng ◽  
Dezhu Li ◽  
...  

Abstract Background and Aims Many monotypic gymnosperm lineages in south-east China paradoxically remain in relict status despite long evolutionary histories and ample opportunities for allopatric speciation, but this paradox has received little attention and has yet to be resolved. Here, we address this issue by investigating the evolutionary history of a relict conifer, Pseudotaxus chienii (Taxaceae). Methods DNA sequences from two chloroplast regions and 14 nuclear loci were obtained for 134 samples. The demographic history was inferred and the contribution of isolation by environment (IBE) in patterning genetic divergence was compared with that of isolation by distance (IBD). Key Results Three genetic clusters were identified. Approximate Bayesian computation analyses showed that the three clusters diverged in the late Pliocene (~3.68 Ma) and two admixture events were detected. Asymmetric gene flow and similar population divergence times (~ 3.74 Ma) were characterized using the isolation with migration model. Neither IBD nor IBE contributed significantly to genetic divergence, and the contribution of IBE was much smaller than that of IBD. Conclusions These results suggest that several monotypic relict gymnosperm lineages like P. chienii in south-east China did not remain in situ and undiversified for millions of years. On the contrary, they have been evolving and the extant populations have become established more recently, having insufficient time to speciate. Our findings provide a new perspective for understanding the formation and evolution of the relict gymnosperm flora of China as well as of the Sino-Japanese Flora.


2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Eun Hwa Choi ◽  
Gyeongmin Kim ◽  
Seung Hyun Cha ◽  
Jun-Sang Lee ◽  
Shi Hyun Ryu ◽  
...  

Abstract Freshwater mussels belonging to the genus Nodularia (Family Unionidae) are known to be widely distributed in East Asia. Although phylogenetic and population genetic studies have been performed for these species, there still remain unresolved questions in their taxonomic status and biogeographic distribution pathways. Here, the nucleotide sequences of CO1 and 16S rRNA were newly determined from 86 N. douglasiae and 83 N. breviconcha individuals collected on the Korean Peninsula. Based on these data, we revealed the following results: (1) N. douglasiae can be divided into the three genetic clades of A (only found in Korean Peninsula), B (widely distributed in East Asia), and C (only found in the west of China and Russia), (2) the clade A is not an independent species but a concrete member of N. douglasiae given the lack of genetic differences between the clades A and B, and (3) N. breviconcha is not a subspecies of N. douglasiae but an independent species apart from N. douglasiae. In addition, we suggested the plausible scenarios of biogeographic distribution events and demographic history of Nodularia species.


2017 ◽  
Author(s):  
Thomas Blankers ◽  
Sibelle T. Vilaça ◽  
Isabelle Waurick ◽  
David A. Gray ◽  
R. Matthias Hennig ◽  
...  

ABSTRACTGene flow, demography, and selection can result in similar patterns of genomic variation and disentangling their effects is key to understanding speciation. Here, we assess transcriptomic variation to unravel the evolutionary history of Gryllus rubens and Gryllus texensis, cryptic field cricket species with highly divergent mating behavior. We infer their demographic history and screen their transcriptomes for footprints of selection in the context of the inferred demography. We find strong support for a long history of bidirectional gene flow, which ceased during the late Pleistocene, and a bottleneck in G. rubens consistent with a peripatric origin of this species. Importantly, the demographic history has likely strongly shaped patterns of neutral genetic differentiation (empirical FST distribution). Concordantly, FST based selection detection uncovers a large number of outliers, likely comprising many false positives, echoing recent theoretical insights. Alternative genetic signatures of positive selection, informed by the demographic history of the sibling species, highlighted a smaller set of loci; many of these are candidates for controlling variation in mating behavior. Our results underscore the importance of demography in shaping overall patterns of genetic divergence and highlight that examining both demography and selection facilitates a more complete understanding of genetic divergence during speciation.


2021 ◽  
Vol 66 (2) ◽  
pp. 122-132
Author(s):  
Berika Beridze ◽  
Łukasz Walas ◽  
Grzegorz Iszkuło ◽  
Anna Jasińska ◽  
Piotr Kosiński ◽  
...  

The Mediterranean Basin is one of the 36 global hotspots of biodiversity and it is rich in endemic tree species. The complex geological history of the region throughout the Neogene and Quaternary periods that were marked with several palaeoclimatic transformations was a major factor triggering the genetic divergence of lineages in tree species in the region. The ongoing global climate change is the main factor threatening Mediterranean biodiversity. The risk of population decline related to aridization is the highest in the case of endemics, especially for cold-adapted conifers, such as Abies cilicica. The Cilician fir grows in the East Mediterranean mountains that constitute a local centre of endemism within the region. The species range is fragmented and small-size populations prevail. Previous studies have suggested that the last glacial cycle led to a significant reduction in the species range and might have initiated genetic divergence. As a result, two lineages are currently recognized at the subspecies level, A. cilicica subsp. isaurica (Turkey) and A. cilicica subsp. cilicica (Turkey, Syria, and Lebanon). The predictions about the impact of future climate changes in the East Mediterranean suggest a profound reduction of precipitation and overall warming that may put the remnant populations of A. cilicica at a risk of decline. Here, we used the Bayesian approach to investigate the demographic history of endemic A. cilicica. Specifically, we estimated the probable time of the intraspecies divergence to verify previous assumptions about the species’ evolutionary history. Additionally, niche modelling was used to outline the potential range of changes in the past and to indicate glacial refugia in where the species persisted climate crisis. This approach was also used to explore the possible influence of the future climate changes on the distribution of A. cilicica in the region. Our results demonstrate that the divergence between the Lebanese and the Turkish populations that occurred ~220 ka years BP coincided with the Riss glaciation. According to palaeoecological data, in the East Mediterranean, that glacial period caused a severe reduction in the populations of woody species due to the aridity of the climate. At that time, the Lebanese-Syrian part of the range was likely disconnected from the main range. The second split was induced by the last glacial cycle ~60 ka years BP and led to the separation of the Central Taurus and East Taurus population and, consequently, to the formation of the two subspecies. Niche modelling for the last glacial maximum has allowed us to locate the probable refugia for A. cilicica in the western Anatolia and Syria-Lebanon area. A projection of the future possible distribution of the species indicates a serious reduction of the range during this century.


2017 ◽  
Author(s):  
Charles Holcombe
Keyword(s):  

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