Table_1_Molecular Phylogeny and Historical Biogeography of Goodyera R. Br. (Orchidaceae): A Case of the Vicariance Between East Asia and North America.XLSX
Understanding of intercontinental distribution in the Northern Hemisphere has attracted a lot of attention from botanists. However, although Orchidaceae is the largest group of angiosperms, biogeographical studies on the disjunctive pattern have not been sufficient for this family. Goodyera R. Br. (...
Main Authors: | , |
---|---|
Format: | Dataset |
Language: | unknown |
Published: |
2022
|
Subjects: | |
Online Access: | https://doi.org/10.3389/fpls.2022.850170.s005 https://figshare.com/articles/dataset/Table_1_Molecular_Phylogeny_and_Historical_Biogeography_of_Goodyera_R_Br_Orchidaceae_A_Case_of_the_Vicariance_Between_East_Asia_and_North_America_XLSX/19690150 |
id |
ftfrontimediafig:oai:figshare.com:article/19690150 |
---|---|
record_format |
openpolar |
spelling |
ftfrontimediafig:oai:figshare.com:article/19690150 2023-05-15T15:42:39+02:00 Table_1_Molecular Phylogeny and Historical Biogeography of Goodyera R. Br. (Orchidaceae): A Case of the Vicariance Between East Asia and North America.XLSX Tae-Hee Kim Joo-Hwan Kim 2022-05-02T04:58:37Z https://doi.org/10.3389/fpls.2022.850170.s005 https://figshare.com/articles/dataset/Table_1_Molecular_Phylogeny_and_Historical_Biogeography_of_Goodyera_R_Br_Orchidaceae_A_Case_of_the_Vicariance_Between_East_Asia_and_North_America_XLSX/19690150 unknown doi:10.3389/fpls.2022.850170.s005 https://figshare.com/articles/dataset/Table_1_Molecular_Phylogeny_and_Historical_Biogeography_of_Goodyera_R_Br_Orchidaceae_A_Case_of_the_Vicariance_Between_East_Asia_and_North_America_XLSX/19690150 CC BY 4.0 CC-BY Botany Plant Biology Plant Systematics and Taxonomy Plant Cell and Molecular Biology Plant Developmental and Reproductive Biology Plant Pathology Plant Physiology Plant Biology not elsewhere classified next-generation sequencing plastid genome phylogenomic age estimation Bering Land Bridge Dataset 2022 ftfrontimediafig https://doi.org/10.3389/fpls.2022.850170.s005 2022-05-04T23:06:02Z Understanding of intercontinental distribution in the Northern Hemisphere has attracted a lot of attention from botanists. However, although Orchidaceae is the largest group of angiosperms, biogeographical studies on the disjunctive pattern have not been sufficient for this family. Goodyera R. Br. (tribe Cranichideae, subfamily Orchidoideae, family Orchidaceae) is widely distributed in temperate and tropical regions. Although the phylogenetic relationship of Goodyera inferred from both morphological and molecular data has been conducted, the sampled taxa were mainly distributed in Asia regions that resulted in non-monophyly of this genus. In this study, the complete plastid genomes of Goodyera, generated by next-generation sequencing (NGS) technique and sampled in East Asia and North America, were used to reconstruct phylogeny and explore the historical biogeography. A total of 18 Goodyera species including seven newly sequenced species were analyzed. Based on 79 protein-coding genes, the phylogenetic analysis revealed that Goodyera could be subdivided into four subclades with high support values. The polyphyletic relationships among Goodyera taxa were confirmed, and the unclear position of G. foliosa was also resolved. The datasets that are composed of the 14 coding sequences (CDS) (matK, atpF, ndhK, accD, cemA, clpP, rpoA, rpl22, ndhF, ccsA, ndhD, ndhI, ndhA, and ycf 1) showed the same topology derived from 79 protein-coding genes. Molecular dating analyses revealed the origin of Goodyera in the mid-Miocene (15.75 Mya). Nearctic clade of Goodyera was diverged at 10.88 Mya from their most recent common ancestor (MRCA). The biogeographical reconstruction suggests that subtropical or tropical Asia is the origin of Goodyera and it has subsequently spread to temperate Asia during the Miocene. In addition, Nearctic clade is derived from East Asian species through Bering Land Bridge (BLB) during the Miocene. The speciation of Goodyera is most likely to have occurred during Miocene, and climatic and geological changes ... Dataset Bering Land Bridge Frontiers: Figshare |
institution |
Open Polar |
collection |
Frontiers: Figshare |
op_collection_id |
ftfrontimediafig |
language |
unknown |
topic |
Botany Plant Biology Plant Systematics and Taxonomy Plant Cell and Molecular Biology Plant Developmental and Reproductive Biology Plant Pathology Plant Physiology Plant Biology not elsewhere classified next-generation sequencing plastid genome phylogenomic age estimation Bering Land Bridge |
spellingShingle |
Botany Plant Biology Plant Systematics and Taxonomy Plant Cell and Molecular Biology Plant Developmental and Reproductive Biology Plant Pathology Plant Physiology Plant Biology not elsewhere classified next-generation sequencing plastid genome phylogenomic age estimation Bering Land Bridge Tae-Hee Kim Joo-Hwan Kim Table_1_Molecular Phylogeny and Historical Biogeography of Goodyera R. Br. (Orchidaceae): A Case of the Vicariance Between East Asia and North America.XLSX |
topic_facet |
Botany Plant Biology Plant Systematics and Taxonomy Plant Cell and Molecular Biology Plant Developmental and Reproductive Biology Plant Pathology Plant Physiology Plant Biology not elsewhere classified next-generation sequencing plastid genome phylogenomic age estimation Bering Land Bridge |
description |
Understanding of intercontinental distribution in the Northern Hemisphere has attracted a lot of attention from botanists. However, although Orchidaceae is the largest group of angiosperms, biogeographical studies on the disjunctive pattern have not been sufficient for this family. Goodyera R. Br. (tribe Cranichideae, subfamily Orchidoideae, family Orchidaceae) is widely distributed in temperate and tropical regions. Although the phylogenetic relationship of Goodyera inferred from both morphological and molecular data has been conducted, the sampled taxa were mainly distributed in Asia regions that resulted in non-monophyly of this genus. In this study, the complete plastid genomes of Goodyera, generated by next-generation sequencing (NGS) technique and sampled in East Asia and North America, were used to reconstruct phylogeny and explore the historical biogeography. A total of 18 Goodyera species including seven newly sequenced species were analyzed. Based on 79 protein-coding genes, the phylogenetic analysis revealed that Goodyera could be subdivided into four subclades with high support values. The polyphyletic relationships among Goodyera taxa were confirmed, and the unclear position of G. foliosa was also resolved. The datasets that are composed of the 14 coding sequences (CDS) (matK, atpF, ndhK, accD, cemA, clpP, rpoA, rpl22, ndhF, ccsA, ndhD, ndhI, ndhA, and ycf 1) showed the same topology derived from 79 protein-coding genes. Molecular dating analyses revealed the origin of Goodyera in the mid-Miocene (15.75 Mya). Nearctic clade of Goodyera was diverged at 10.88 Mya from their most recent common ancestor (MRCA). The biogeographical reconstruction suggests that subtropical or tropical Asia is the origin of Goodyera and it has subsequently spread to temperate Asia during the Miocene. In addition, Nearctic clade is derived from East Asian species through Bering Land Bridge (BLB) during the Miocene. The speciation of Goodyera is most likely to have occurred during Miocene, and climatic and geological changes ... |
format |
Dataset |
author |
Tae-Hee Kim Joo-Hwan Kim |
author_facet |
Tae-Hee Kim Joo-Hwan Kim |
author_sort |
Tae-Hee Kim |
title |
Table_1_Molecular Phylogeny and Historical Biogeography of Goodyera R. Br. (Orchidaceae): A Case of the Vicariance Between East Asia and North America.XLSX |
title_short |
Table_1_Molecular Phylogeny and Historical Biogeography of Goodyera R. Br. (Orchidaceae): A Case of the Vicariance Between East Asia and North America.XLSX |
title_full |
Table_1_Molecular Phylogeny and Historical Biogeography of Goodyera R. Br. (Orchidaceae): A Case of the Vicariance Between East Asia and North America.XLSX |
title_fullStr |
Table_1_Molecular Phylogeny and Historical Biogeography of Goodyera R. Br. (Orchidaceae): A Case of the Vicariance Between East Asia and North America.XLSX |
title_full_unstemmed |
Table_1_Molecular Phylogeny and Historical Biogeography of Goodyera R. Br. (Orchidaceae): A Case of the Vicariance Between East Asia and North America.XLSX |
title_sort |
table_1_molecular phylogeny and historical biogeography of goodyera r. br. (orchidaceae): a case of the vicariance between east asia and north america.xlsx |
publishDate |
2022 |
url |
https://doi.org/10.3389/fpls.2022.850170.s005 https://figshare.com/articles/dataset/Table_1_Molecular_Phylogeny_and_Historical_Biogeography_of_Goodyera_R_Br_Orchidaceae_A_Case_of_the_Vicariance_Between_East_Asia_and_North_America_XLSX/19690150 |
genre |
Bering Land Bridge |
genre_facet |
Bering Land Bridge |
op_relation |
doi:10.3389/fpls.2022.850170.s005 https://figshare.com/articles/dataset/Table_1_Molecular_Phylogeny_and_Historical_Biogeography_of_Goodyera_R_Br_Orchidaceae_A_Case_of_the_Vicariance_Between_East_Asia_and_North_America_XLSX/19690150 |
op_rights |
CC BY 4.0 |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.3389/fpls.2022.850170.s005 |
_version_ |
1766376607114592256 |