Advances in biogeography in the age of a new modern synthesis

Wen, Jun; Nie, Ze‐Long; Ickert‐Bond, Stefanie M.

doi:10.1111/jse.12550

Cited by 8 publications

(8 citation statements)

References 47 publications

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“…North temperate disjunctions among East Asia, southern Europe/West Asia, eastern North America, and western North America refugia are certainly the best known and most frequently studied of all the major intercontinental disjunctions [ 1 , 2 , 4 , 5 , 6 , 7 ]. Among the northern temperate disjunctions, many analyses have been conducted between (1) East Asia and eastern North America [ 8 , 9 , 10 , 11 , 12 ], (2) East Asia and western North America [ 13 , 14 ], (3) eastern North America and western North America [ 15 ], (4) southern Europe and western North America [ 3 , 16 ], and (5) of the trans-Atlantic disjunction [ 17 , 18 ]. There is a group of genera (e.g., Acer , Aesculus , Forsythia , Liquidambar , Picea , Parrotia , Pterocarya , and Zelkova ) sharing the East Asian versus southern European/West Asian disjunct pattern, including those in North America [ 19 , 20 , 21 , 22 ].…”

Section: Introductionmentioning

confidence: 99%

“…Molecular phylogeny is an important basic framework for biogeography to study the patterns and processes that shape the distributions of life over a wide range of spatial and temporal scales [ 12 , 39 , 40 , 41 ]. Using chloroplast DNA fragments and low-copy nuclear gene data, previous phylogenetic studies on Pterocarya have recovered several provisional frameworks within the genus and identified its position within the Juglandaceae [ 35 , 42 , 43 , 44 , 45 ].…”

Section: Introductionmentioning

confidence: 99%

“…In recent years, phylogenomics has provided a more robust phylogenetic framework, and has breathed new life into biogeography [ 12 ]. Restriction site-associated DNA sequencing (RAD-seq) produces abundant single-nucleotide polymorphism (SNP) data throughout the genome, which can be used for phylogenetic inference [ 46 , 47 , 48 , 49 ].…”

Section: Introductionmentioning

confidence: 99%

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Phylogeny, Taxonomy, and Biogeography of Pterocarya (Juglandaceae)

Liu

Meng

Fragnière

et al. 2020

Plants

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Relict species play an important role in understanding the biogeography of intercontinental disjunctions. Pterocarya (a relict genus) is the valuable model taxon for studying the biogeography of East Asian versus southern European/West Asian disjunct patterns. This disjunction has not been as well studied as others (e.g., between Eastern Asia and North America). Several phylogenetic studies on Pterocarya have been conducted, but none have provided a satisfactory phylogenetic resolution. Here, we report the first well-resolved phylogeny of Pterocarya using restriction site-associated DNA sequencing data based on the sampling of all taxa across the entire distribution area of the genus. Taxonomic treatments were also clarified by combining morphological traits. Furthermore, fossil-calibrated phylogeny was used to explore the biogeography of Pterocarya. Our results support the existence of two sections in Pterocarya, which is in accordance with morphological taxonomy. Section Platyptera comprises three species: P. rhoifolia, P. macroptera, and P. delavayi. Section Pterocarya also comprises three species: P. fraxinifolia, P. hupehensis, and P. stenoptera. The divergence between the two sections took place during the early Miocene (20.5 Ma). The formation of the Gobi Desert and climate cooling of northern Siberia in the Middle Miocene (15.7 Ma) might have caused the split of the continuous distribution of this genus and the formation of the East Asian versus southern European/West Asian disjunct pattern. Lastly, the divergence between P. hupehensis and P. stenoptera as well as between P. rhoifolia and P. macroptera/P. delavayi (10.0 Ma) supports the late Miocene diversification hypothesis in East Asia.

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Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Phylogeny, Taxonomy, and Biogeography of Pterocarya (Juglandaceae)

Liu

Meng

Fragnière

et al. 2020

Plants

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“…Due to computational restrictions and given our primary focus on potential reticulation between different species, we reduced the 45-sample data set to one outgroup and 14 ingroup samples representing all major clades based on the nuclear analyses. We looked for evidence of hybridization within Abelia via species network search carried out with the InferNetwork_MPL function in PhyloNet (Wen et al, 2018). Network searches were carried out using only nodes in the gene trees that had at least 50 percent bootstrap support, enabling up to five hybridization events and optimizing the branch lengths and probabilities of inheritance of the returned species networks under the full probability.…”

Section: Methodsmentioning

confidence: 99%

“…The underlying causes of disjunct distributions in various organisms have been a central issue in biogeography (e.g., Xiang et al, 1998; Wen, 2001; Qian and Ricklefs, 2004; Wang et al, 2012; Wen et al, 2013, 2018). Much discussion has focused on two mechanisms, vicariance and long-distance dispersal (Givnish and Renner, 2004; Yoder and Nowak, 2006; Šarhanová et al, 2017; Wang et al, 2020).…”

Section: Introductionmentioning

confidence: 99%

Phylogenomic analyses of the East Asian endemicAbelia(Caprifoliaceae) shed insights into the temporal and spatial diversification history with widespread hybridizations

Sun

Morales‐Briones

Wang

et al. 2021

Preprint

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Background and Aims Abelia (Caprifoliaceae) is a small genus with five species (including one artificial hybrid). The genus has a disjunct distribution across mainland China, Taiwan and the Ryukyu Islands, providing a model system to explore species dispersal mechanisms of the East Asian flora. However, the current phylogenetic relationships within Abelia remain controversial. Methods In this study, we reconstructed the phylogenetic relationships within Abelia using nuclear loci generated by target enrichment and the cpDNA from genome skimming. Key Results: We found large cytonuclear discordance across the genus. Based on the nuclear and chloroplast phylogenies we proposed to merge A. schumannii into A. macrotera, and A. macrotera var. mairei into A. uniflora. Divergence time estimation, ancestral area reconstruction, and ecological niche modelling (ENM) were used to examine the biogeographic history of Abelia. Our results showed that Abelia originated in Southwest China, and diversification began in the Early Eocene, followed by A. chinensis var. ionandra colonizing Taiwan in the Middle Miocene. The ENM results suggested an expansion of climatically suitable areas during the Last Glacial Maximum and range contraction during the Last Interglacial. Disjunction between the Himalaya-Hengduan Mountain region (HHM) and Taiwan is most likely the consequence of topographic isolation and postglacial contraction. Conclusions Overall, our results supports that postglacial range contraction together with topographic heterogeneity resulted in the Taiwan and China mainland disjunction. Furthermore, when we using genome data to reconstruct the phylogeny of related species, branch evolution and network evolution should be considered, as well as gene flow in historical periods. This research provide new insights for the speciation process and taxonomy of Abelia.

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Evolution of genes and genomes in the genomics era

Guo

2020

Sci. China Life Sci.

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Advances in biogeography in the age of a new modern synthesis

Cited by 8 publications

References 47 publications

Phylogeny, Taxonomy, and Biogeography of Pterocarya (Juglandaceae)

Phylogeny, Taxonomy, and Biogeography of Pterocarya (Juglandaceae)

Phylogenomic analyses of the East Asian endemicAbelia(Caprifoliaceae) shed insights into the temporal and spatial diversification history with widespread hybridizations

Evolution of genes and genomes in the genomics era

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