@ARTICLE{TreeBASE2Ref19066,
author = {Akihiko Kinoshita and Hiromi Sasaki and Kazuhide Nara},
title = {Phylogeny and diversity of Japanese truffles (Tuber spp.) inferred from sequences of four nuclear loci},
year = {2011},
keywords = {Asia, biogeography, ectomycorrhizal fungi, evolution, multi-loci phylogeny, species richness},
doi = {10.3852/10-138},
url = {http://www.mycologia.org/},
pmid = {21459485},
journal = {Mycologia},
volume = {103},
number = {4},
pages = {779--794},
abstract = {The genus Tuber, which includes some highly valued truffles, comprises ascomycetous ecto- mycorrhizal fungi associated with ecologically impor- tant tree species. Although the genus is distributed over northern temperate regions, we know little about the phylogeny and diversity of Tuber species in Japan. We have collected 186 new Tuber ascoma samples in Japan over a 10 y period. The identities and phylogenies of the samples were analyzed with sequences of four nuclear loci (i.e. internal tran- scribed spacer [ITS] and large subunit [LSU] regions of rDNA, elongation factor 1 alpha [EF1-a], and RNA polymerase II large subunit [rpb2] genes). Based on the species delimitation of 95% sequence matches in the ITS region, which is a suitable region for species- level identification of higher fungi, we identified 20 Tuber species. The number of observed species did not reach an asymptote with our maximum sampling localities in a species accumulation curve. The Chao2 species richness estimator indicated that at least 40 Tuber species should be present in Japan. Molecular phylogenetic analyses revealed that Japanese Tuber species belong to five major phylogroups, including Macrosporum, which had not been reported previous- ly in Asia. Two Japanese species were morphologically and phylogenetically distinct from other known phylogroups, and here we propose a new Tuber phylogroup, Japonicum. In addition most of the other Japanese species formed separate clades within individual major phylogroups and deserve to be proposed as new species. Detailed molecular phylogeny within individual phylogroups revealed the existence of phylogeographic structures at both continental and within-Asia scales, indicating that migration and allopatric speciation have occurred even between the mainland and islands in Asia. Although our findings substantially advance current understanding of Tuber diversity and phylogeny, comparable richness estimation and multilocus phy- logeny in other geographic regions are necessary to unequivocally address global patterns of Tuber diver- sity and biogeography.}
}
Citation for Study 10673
Citation title:
"Phylogeny and diversity of Japanese truffles (Tuber spp.) inferred from sequences of four nuclear loci".
Study name:
"Phylogeny and diversity of Japanese truffles (Tuber spp.) inferred from sequences of four nuclear loci".
This study is part of submission 10663
(Status: Published).
Citation
Kinoshita A., Sasaki H., & Nara K. 2011. Phylogeny and diversity of Japanese truffles (Tuber spp.) inferred from sequences of four nuclear loci. Mycologia, 103(4): 779-794.
Authors
-
Kinoshita A.
(submitter)
-
Sasaki H.
-
Nara K.
Abstract
The genus Tuber, which includes some highly valued truffles, comprises ascomycetous ecto- mycorrhizal fungi associated with ecologically impor- tant tree species. Although the genus is distributed over northern temperate regions, we know little about the phylogeny and diversity of Tuber species in Japan. We have collected 186 new Tuber ascoma samples in Japan over a 10 y period. The identities and phylogenies of the samples were analyzed with sequences of four nuclear loci (i.e. internal tran- scribed spacer [ITS] and large subunit [LSU] regions of rDNA, elongation factor 1 alpha [EF1-a], and RNA polymerase II large subunit [rpb2] genes). Based on the species delimitation of 95% sequence matches in the ITS region, which is a suitable region for species- level identification of higher fungi, we identified 20 Tuber species. The number of observed species did not reach an asymptote with our maximum sampling localities in a species accumulation curve. The Chao2 species richness estimator indicated that at least 40 Tuber species should be present in Japan. Molecular phylogenetic analyses revealed that Japanese Tuber species belong to five major phylogroups, including Macrosporum, which had not been reported previous- ly in Asia. Two Japanese species were morphologically and phylogenetically distinct from other known phylogroups, and here we propose a new Tuber phylogroup, Japonicum. In addition most of the other Japanese species formed separate clades within individual major phylogroups and deserve to be proposed as new species. Detailed molecular phylogeny within individual phylogroups revealed the existence of phylogeographic structures at both continental and within-Asia scales, indicating that migration and allopatric speciation have occurred even between the mainland and islands in Asia. Although our findings substantially advance current understanding of Tuber diversity and phylogeny, comparable richness estimation and multilocus phy- logeny in other geographic regions are necessary to unequivocally address global patterns of Tuber diver- sity and biogeography.
Keywords
Asia, biogeography, ectomycorrhizal fungi, evolution, multi-loci phylogeny, species richness
External links
About this resource
- Canonical resource URI:
http://purl.org/phylo/treebase/phylows/study/TB2:S10673
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- Show BibTeX reference
@ARTICLE{TreeBASE2Ref19066,
author = {Akihiko Kinoshita and Hiromi Sasaki and Kazuhide Nara},
title = {Phylogeny and diversity of Japanese truffles (Tuber spp.) inferred from sequences of four nuclear loci},
year = {2011},
keywords = {Asia, biogeography, ectomycorrhizal fungi, evolution, multi-loci phylogeny, species richness},
doi = {10.3852/10-138},
url = {http://www.mycologia.org/},
pmid = {21459485},
journal = {Mycologia},
volume = {103},
number = {4},
pages = {779--794},
abstract = {The genus Tuber, which includes some highly valued truffles, comprises ascomycetous ecto- mycorrhizal fungi associated with ecologically impor- tant tree species. Although the genus is distributed over northern temperate regions, we know little about the phylogeny and diversity of Tuber species in Japan. We have collected 186 new Tuber ascoma samples in Japan over a 10 y period. The identities and phylogenies of the samples were analyzed with sequences of four nuclear loci (i.e. internal tran- scribed spacer [ITS] and large subunit [LSU] regions of rDNA, elongation factor 1 alpha [EF1-a], and RNA polymerase II large subunit [rpb2] genes). Based on the species delimitation of 95% sequence matches in the ITS region, which is a suitable region for species- level identification of higher fungi, we identified 20 Tuber species. The number of observed species did not reach an asymptote with our maximum sampling localities in a species accumulation curve. The Chao2 species richness estimator indicated that at least 40 Tuber species should be present in Japan. Molecular phylogenetic analyses revealed that Japanese Tuber species belong to five major phylogroups, including Macrosporum, which had not been reported previous- ly in Asia. Two Japanese species were morphologically and phylogenetically distinct from other known phylogroups, and here we propose a new Tuber phylogroup, Japonicum. In addition most of the other Japanese species formed separate clades within individual major phylogroups and deserve to be proposed as new species. Detailed molecular phylogeny within individual phylogroups revealed the existence of phylogeographic structures at both continental and within-Asia scales, indicating that migration and allopatric speciation have occurred even between the mainland and islands in Asia. Although our findings substantially advance current understanding of Tuber diversity and phylogeny, comparable richness estimation and multilocus phy- logeny in other geographic regions are necessary to unequivocally address global patterns of Tuber diver- sity and biogeography.}
}
- Show RIS reference
TY - JOUR
ID - 19066
AU - Kinoshita,Akihiko
AU - Sasaki,Hiromi
AU - Nara,Kazuhide
T1 - Phylogeny and diversity of Japanese truffles (Tuber spp.) inferred from sequences of four nuclear loci
PY - 2011
KW - Asia
KW - biogeography
KW - ectomycorrhizal fungi
KW - evolution
KW - multi-loci phylogeny
KW - species richness
UR - http://www.mycologia.org/
N2 - The genus Tuber, which includes some highly valued truffles, comprises ascomycetous ecto- mycorrhizal fungi associated with ecologically impor- tant tree species. Although the genus is distributed over northern temperate regions, we know little about the phylogeny and diversity of Tuber species in Japan. We have collected 186 new Tuber ascoma samples in Japan over a 10 y period. The identities and phylogenies of the samples were analyzed with sequences of four nuclear loci (i.e. internal tran- scribed spacer [ITS] and large subunit [LSU] regions of rDNA, elongation factor 1 alpha [EF1-a], and RNA polymerase II large subunit [rpb2] genes). Based on the species delimitation of 95% sequence matches in the ITS region, which is a suitable region for species- level identification of higher fungi, we identified 20 Tuber species. The number of observed species did not reach an asymptote with our maximum sampling localities in a species accumulation curve. The Chao2 species richness estimator indicated that at least 40 Tuber species should be present in Japan. Molecular phylogenetic analyses revealed that Japanese Tuber species belong to five major phylogroups, including Macrosporum, which had not been reported previous- ly in Asia. Two Japanese species were morphologically and phylogenetically distinct from other known phylogroups, and here we propose a new Tuber phylogroup, Japonicum. In addition most of the other Japanese species formed separate clades within individual major phylogroups and deserve to be proposed as new species. Detailed molecular phylogeny within individual phylogroups revealed the existence of phylogeographic structures at both continental and within-Asia scales, indicating that migration and allopatric speciation have occurred even between the mainland and islands in Asia. Although our findings substantially advance current understanding of Tuber diversity and phylogeny, comparable richness estimation and multilocus phy- logeny in other geographic regions are necessary to unequivocally address global patterns of Tuber diver- sity and biogeography.
L3 - 10.3852/10-138
JF - Mycologia
VL - 103
IS - 4
SP - 779
EP - 794
ER -