著者

Akira S. Hirao Atsushi Kumata Toshihito Takagi Yoshito Sasaki Takashi Shigihara Eiichi Kimura Shingo Kaneko

出版者

The Mycological Society of Japan

雑誌

Mycoscience (ISSN:13403540)

巻号頁・発行日

vol.63, no.3, pp.79-87, 2022-05-31 (Released:2022-05-31)

参考文献数

45

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Pholiota microspora (“nameko” in Japanese) is one of the most common edible mushrooms, especially in Japan, where sawdust-based cultivation is the most dominant method accounting for 99% of the production. The current strains for sawdust cultivation in Japan are considered to have been derived from a single wild strain collected from Fukushima, Japan, implying that commercial nameko mushrooms are derived from a severe genetic bottleneck. We tested this single founder hypothesis by developing 14 microsatellite markers for P. microspora to evaluate the genetic diversity of 50 cultivars and 73 wild strains isolated from across Japan. Microsatellite analysis demonstrated that sawdust-cultivated strains from Japan were significantly less genetically diverse than the wild strains, and the former displayed a significant bottleneck signature. Analyzing the genetic relationships among all genotypes also revealed that the sawdust-cultivated samples clustered into one monophyletic subgroup. Moreover, the sawdust-cultivated samples in Japan were more closely related than full-sibs. These results were consistent with the single founder hypothesis that suggests that all commercial nameko mushrooms produced in Japan are descendants of a single ancestor. Therefore, we conclude that cultivated P. microspora originated from a single domestication event that substantially reduced the diversity of commercial nameko mushrooms in Japan.

著者

Kenji Ogaki Kenji Suetsugu Keiju Kishikawa Daisuke Kyogoku Kohtaroh Shutoh Yuji Isagi Shingo Kaneko

出版者

The Genetics Society of Japan

雑誌

Genes & Genetic Systems (ISSN:13417568)

巻号頁・発行日

vol.94, no.5, pp.225-229, 2019-10-01 (Released:2019-12-10)

参考文献数

27

被引用文献数

1 3

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Gastrodia is the most species-rich genus among mycoheterotrophic plants, and is thus an essential taxon to understand the mechanism of species diversification in mycoheterotrophs. In this study, we developed microsatellite markers with high transferability for four Gastrodia species to examine genetic differentiation and similarity among species, populations and individuals. The 12 microsatellite markers developed from a G. fontinalis library showed high transferability for the ramets that identified G. nipponica, G. kuroshimensis and G. takeshimensis. In addition to the high transferability of these markers, we observed low allele variation within a sampled population of each species and allele differences among the four species. The 12 markers described here will be useful for investigating the genetic differences among and within the Gastrodia species, which evolved by a limitation of gene flow.

著者

Akira S. Hirao Atsushi Kumata Toshihito Takagi Yoshito Sasaki Takashi Shigihara Eiichi Kimura Shingo Kaneko

出版者

The Mycological Society of Japan

雑誌

Mycoscience (ISSN:13403540)

巻号頁・発行日

pp.MYC570, (Released:2022-05-20)

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Pholiota microspora (“nameko” in Japanese) is one of the most common edible mushrooms, especially in Japan, where sawdust-based cultivation is the most dominant method accounting for 99% of the production. The current strains for sawdust cultivation in Japan are considered to have been derived from a single wild strain collected from Fukushima, Japan, implying that commercial nameko mushrooms are derived from a severe genetic bottleneck. We tested this single founder hypothesis by developing 14 microsatellite markers for P. microspora to evaluate the genetic diversity of 50 cultivars and 73 wild strains isolated from across Japan. Microsatellite analysis demonstrated that sawdust-cultivated strains from Japan were significantly less genetically diverse than the wild strains, and the former displayed a significant bottleneck signature. Analyzing the genetic relationships among all genotypes also revealed that the sawdust-cultivated samples clustered into one monophyletic subgroup. Moreover, the sawdust-cultivated samples in Japan were more closely related than full-sibs. These results were consistent with the single founder hypothesis that suggests that all commercial nameko mushrooms produced in Japan are descendants of a single ancestor. Therefore, we conclude that cultivated P. microspora originated from a single domestication event that substantially reduced the diversity of commercial nameko mushrooms in Japan.

著者

Uchu Yamakawa Shingo Kaneko Ryosuke Imai Leanne Kay Faulks Koetsu Kon Daisuke Kyogoku Yuji Isagi Yoshiaki Tsuda

出版者

The Genetics Society of Japan

雑誌

Genes & Genetic Systems (ISSN:13417568)

巻号頁・発行日

pp.19-00007, (Released:2019-11-16)

参考文献数

27

被引用文献数

2

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The amphidromous sleeper Eleotris oxycephala (Perciformes: Eleotridae) is mainly distributed along the Kuroshio Current in East Asia, and this current is thought to be the main driver of the species' dispersal. Due to anthropogenic environmental changes in rivers, E. oxycephala is ranked as a threatened or near-threatened species in the red lists of 12 prefectures in Japan. Moreover, there is concern that the species' dispersal pattern could be changed due to fluctuations in the Kuroshio Current caused by global warming. In this study, 40 microsatellite markers were developed for E. oxycephala, and their suitability was tested on 43 individuals from two populations of E. oxycephala from Kanagawa and Miyazaki Prefectures. The number of alleles, expected heterozygosity and fixation index at each locus were 2–10 (mean = 5.350), 0.034–0.860 (mean = 0.650) and -0.261–0.448 (mean = 0.065), respectively. Furthermore, there was a lack of genetic difference between the two populations (FST = 0.008, F'ST = 0.024), indicating widespread gene flow via the Kuroshio Current. These markers will be useful to evaluate the genetic structure and infer population demographic history of E. oxycephala populations, which may assist in the conservation of this species.

著者

Naoyuki Nakahama Azusa Ito Shingo Kaneko Yu Matsuki Yoshihisa Suyama Azusa Hayano Miho Murayama Yuji Isagi

出版者

The Genetics Society of Japan

雑誌

Genes & Genetic Systems (ISSN:13417568)

巻号頁・発行日

pp.17-00021, (Released:2018-01-17)

被引用文献数

3

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Microsatellite markers were developed for the endangered orchid Calanthe izu-insularis (Orchidaceae). This species is unique to the Izu Islands in Japan. Unfortunately, its population size has decreased because of excessive collection for horticultural purposes. In addition, although natural hybridization between C. izu-insularis and C. discolor var. discolor has been reported, morphological differences between C. izu-insularis and the hybridized individuals remain unclear. Using next-generation sequencing, 11 polymorphic microsatellite markers were developed. All developed markers could amplify C. aristulifera and nine markers could amplify C. d. var. discolor, two other orchid species that are also endangered in Japan. The number of alleles and expected heterozygosity at each locus were 1–6 (mean, 2.35) and 0.00–0.79 (mean, 0.30), respectively. These microsatellite markers will help conservation geneticists in their investigation of the proportion of pure C. izu-insularis individuals in the Izu Islands.

著者

Kohtaroh Shutoh Shingo Kaneko Takahide Kurosawa

出版者

The Japanese Society for Plant Systematics

雑誌

Acta Phytotaxonomica et Geobotanica (ISSN:13467565)

巻号頁・発行日

vol.68, no.3, pp.181-192, 2017 (Released:2017-11-24)

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Pyrola subaphylla (Pyroleae, Ericaceae), which generally produces reddish scapes and scale-like or extremely small leaves, has been treated as a variety or form of the closely related P. japonica, which generally has green scapes and fully developed leaves, owing to observations of individuals with intermediate morphology. Recently, these two taxa were shown to differ genetically, supporting recognition of P. subaphylla as a distinct species. We identified herbarium specimens as P. subaphylla when (1) at least three shoots were mounted on the same sheet, (2) leaf blades <3.0 cm in length were present on all mounted shoots, and (3) at least one flowering shoot either lacked ordinary leaves, which are distinguished from scale-like leaves with blade >1 cm long, or bore only a single ordinary leaf. A revised taxonomic treatment of the species is proposed. In Japan, P. subaphylla occurs in Hokkaidō, Honshū (Tōhoku and Chūbu district), and Shikoku, usually in coniferous forests at 0–1,500 m.

著者

Keiju Kishikawa Kenji Suetsugu Daisuke Kyogoku Kenji Ogaki Daisuke Iga Kohtaroh Shutoh Yuji Isagi Shingo Kaneko

出版者

The Genetics Society of Japan

雑誌

Genes & Genetic Systems (ISSN:13417568)

巻号頁・発行日

vol.94, no.2, pp.95-98, 2019-04-01 (Released:2019-04-27)

参考文献数

16

被引用文献数

5 5

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We developed microsatellite markers to compare the genetic variation between the putatively cleistogamous Gastrodia takeshimensis (Orchidaceae) and its chasmogamous sister species G. nipponica. We expected low genetic variation in G. takeshimensis in view of its hypothesized cleistogamy. Eighteen primer pairs were developed from a G. takeshimensis genomic DNA library, and their characteristics were tested for G. takeshimensis and G. nipponica. Seven loci were polymorphic in G. nipponica, whereas all loci showed no polymorphism in G. takeshimensis. Genetic diversity was thus not detected in G. takeshimensis, and it seems to have been lost by repeated selfing in the completely closed flower. The 18 markers described here will be useful for investigating the genetic variation between a cleistogamous species and its chasmogamous sister species.

著者

TAKASHI YAMASAKI KEICHI OZEKI NORIYUKI FUJII MARI TAKEHARA MASASHI YOKOGAWA SHINGO KANEKO YUJI ISAGI

出版者

The Japanese Society for Plant Systematics

雑誌

Acta Phytotaxonomica et Geobotanica (ISSN:13467565)

巻号頁・発行日

vol.63, no.3, pp.107-120, 2013-04-05 (Released:2017-03-21)

参考文献数

73

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Silene kiusiana (Caryophyllaceae) is an endangered perennial herb of semi-natural grasslands in Japan and Korea. To elucidate the genetic status of S. kiusiana in the Aso region, Kyushu, Japan, in which relatively large populations still remain, we analyzed the genetics of seven populations of S. kiusiana using five novel microsatellite markers. Each population of S, kiusiana has maintained relatively high genetic diversity (mean H_E = 0.791 and mean N_A =12.0). In addition, the values of pairwise F_<ST> indicating the degree of genetic differentiation among populations were significantly larger than zero between all pairs of populations, although the degrees of difference were small. The semi-natural grasslands in the Aso region have decreased in size over the past several decades, and thus habitat fragmentation may have caused genetic differentiation among populations of S. kiusiana. Although the populations of S. kiusiana have maintained relatively high genetic diversity, the genetic dynamics of S. kiusiana populations should be continuously monitored.

著者

SHINGO KANEKO NOBUKAZU NAKAGOSHI YUJI ISAGI

出版者

The Japanese Society for Plant Systematics

雑誌

Acta Phytotaxonomica et Geobotanica (ISSN:13467565)

巻号頁・発行日

vol.59, no.2, pp.165-174, 2008-07-30 (Released:2017-03-21)

参考文献数

53

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Polyploidization is an important evolutionary force in plant speciation, and elucidating the origin and evolutionary history of a particular polyploid is important for understanding the evolution and distribution of plants. We investigated the origin of the endangered tetraploid Adonis ramosa Franch., which is endemic to Japan. To clarify the origin and phylogenetic relationships among A. ramosa and diploid species, we conducted a phylogenetic analysis of the species of Adonis in Japan and Korea using chloroplast trnL-trnF spacer and nuclear ribosomal internal transcribed spacer (ITS) sequences. The sequences of the ITS region of showed that the sequences of A. ramosa were completely consistent with or quite similar to those of A. amurensis Regel & Radde of Hokkaido, Japan, and clearly differed from those of A. amurensis in Korea and three diploid species from Japan and Korea. The results suggest the possibility that A. ramosa is an autotetraploid, and the diploid progenitor is A. amurensis from Hokkaido. The distribution pattern of the ITS haplotype of A. ramosa also indicates range expansion of A. ramosa from northern to southern Japan Ecological divergence and adaptation to new habitats after polyploidization are likely to increase the survival of A. ramosa and enable it to widely colonize in new environments in Japan.

著者

Noriyuki Fujii Satoshi Takasawa Masashi Yokogawa Takashi Yamasaki Kensuke Harada Shingo Kaneko Yuji Isagi

出版者

The Japanese Society for Plant Systematics

雑誌

Acta Phytotaxonomica et Geobotanica (ISSN:13467565)

巻号頁・発行日

vol.67, no.2, pp.69-82, 2016 (Released:2016-12-20)

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Veronicastrum sibiricum var. zuccarinii (Plantaginaceae) is an endangered perennial herb native to semi-natural grasslands in southern Korea and Kyushu, Japan. To elucidate the genetic status of V. sibiricum var. zuccarinii in the Aso region of Kyushu, in which relatively large populations still remain, we analyzed seven populations using five novel microsatellite markers. Each population of V. sibiricum var. zuccarinii has a maintained moderate level of genetic diversity (mean H E = 0.596, mean N A = 5.6, and mean AR = 4.7). Pairwise F ST indicated significant genetic differentiation between all population pairs (0.065−0.309). The semi-natural grasslands in the Aso region have decreased in area over the past decades. Thus, habitat fragmentation may be causing genetic differentiation among populations of V. sibiricum var. zuccarinii. Although the populations of this variety have maintained a moderate degree of genetic diversity, the dynamics of gene flow among them should be continuously monitored.