著者

Yoshihiro Kawahara Tomoko Endo Mitsuo Omura Yumiko Teramoto Takeshi Itoh Hiroshi Fujii Takehiko Shimada

出版者

Japanese Society of Breeding

雑誌

Breeding Science (ISSN:13447610)

巻号頁・発行日

pp.19097, (Released:2020-03-05)

被引用文献数

10

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Citrus species are some of the most valuable and widely consumed fruits globally. The genome sequences of representative citrus (e.g., Citrus clementina, C. sinensis, C. grandis) species have been released but the research base for mandarin molecular breeding is still poor. We assembled the genomes of Citrus unshiu and Poncirus trifoliata, two important species for citrus industry in Japan, using hybrid de novo assembly of Illumina and PacBio sequence data, and developed the Mikan Genome Database (MiGD). The assembled genome sizes of C. unshiu and P. trifoliata are 346 and 292 Mb, respectively, similar to those of citrus species in public databases; they are predicted to possess 41,489 and 34,333 protein-coding genes in their draft genome sequences, with 9,642 and 8,377 specific genes when compared to C. clementina, respectively. MiGD is an integrated database of genome annotation, genetic diversity, and Cleaved Amplified Polymorphic Sequence (CAPS) marker information, with these contents being mutually linked by genes. MiGD facilitates access to genome sequences of interest from previously reported linkage maps through CAPS markers and obtains polymorphism information through the multiple genome browser TASUKE. The genomic resources in MiGD (https://mikan.dna.affrc.go.jp) could provide valuable information for mandarin molecular breeding in Japan.

著者

Hiroshi Fujii Satoshi Ohta Keisuke Nonaka Yuichi Katayose Toshimi Matsumoto Tomoko Endo Terutaka Yoshioka Mitsuo Omura Takehiko Shimada

出版者

日本育種学会

雑誌

Breeding Science (ISSN:13447610)

巻号頁・発行日

pp.16060, (Released:2016-10-15)

被引用文献数

17

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Satsuma mandarins (Citrus unshiu Marc.) are the predominant cultivated citrus variety in Japan. Clarification of its origin would prove valuable for citrus taxonomy and mandarin breeding programs; however, current information is limited. We applied genome-wide genotyping using a 384 citrus single nucleotide polymorphism (SNP) array and MARCO computer software to investigate the satsuma mandarin parentage. Genotyping data from 206 validated SNPs were obtained to evaluate 67 citrus varieties and lines. A total of five parent–offspring relationships were newly found by MARCO based on the 206 SNP genotypes, indicating that ‘Kishuu mikan’ type mandarins (Citrus kinokuni hort. ex Tanaka accession ‘Kishuu mikan’ and ‘Nanfengmiju’) and ‘Kunenbo’ type mandarins (Citrus nobilis Lour. var. kunip Tanaka accession ‘Kunenbo’ and ‘Bendiguangju’) are possible parents of the satsuma mandarin. Moreover, cleaved amplified polymorphic sequences analysis showed that the genotypes of four regions in chloroplast DNA of ‘Kishuu mikan’ type mandarins were identical to that of the satsuma mandarin. Considering the historical background, satsuma mandarins may therefore derive from an occasional cross between a ‘Kishuu mikan’ type mandarin seed parent (derivative or synonym of ‘Nanfengmiju’) and a ‘Kunenbo’ type mandarin pollen parent (derivative or synonym of ‘Bendiguangju’).

著者

Mitsutoshi Okamoto Yuki Monden Akiko Shindo Tomoyuki Takeuchi Tomoko Endo Yukinori Shigematsu Kazuto Takasaki Hiroshi Fujii Takehiko Shimada

出版者

Japanese Society of Breeding

雑誌

Breeding Science (ISSN:13447610)

巻号頁・発行日

vol.73, no.2, pp.146-157, 2023 (Released:2023-06-06)

参考文献数

39

被引用文献数

2

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Citrus is a major cultivated crop in Japan, and new cultivars are of great interest in the Japanese and global market. Recently, the infringement of breeders’ rights to citrus cultivars bred in Japan has become a problem related to the agricultural product export strategy promoted by the Japanese government. Cultivar identification systems using DNA markers are an effective tool for protecting breeders’ rights. Here, a novel target cultivar-specific identification system using the chromatographic printed array strip method was developed for eight prominent Japanese citrus cultivars. A polymorphic InDel fragment specific to each cultivar was explored through the screening of published citrus InDel markers and next-generation sequencing of retrotransposon libraries. The cultivar-specific DNA marker set for each cultivar comprised 1–3 polymorphic InDel fragments in combination with a PCR-positive DNA marker for the ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit gene. The DNA markers were detected within 3 hours from DNA extraction to the detection by the C-PAS4 membrane stick following multiplex PCR. The developed system is superior as a convenient, rapid, and cost-effective DNA diagnostic method during inspection. The proposed target cultivar-specific identification system is expected to serve as an efficient tool for the injunction of suspicious registered cultivars, contributing to the protection of breeders’ rights.

著者

Fumie Nishikawa Mitsunori Iwasaki Hiroshi Fukamachi Tomoko Endo

出版者

一般社団法人 園芸学会

雑誌

The Horticulture Journal (ISSN:21890102)

巻号頁・発行日

pp.OKD-031, (Released:2016-11-29)

被引用文献数

8

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In citrus trees, a technique for predicting the number of flowers is needed to prevent inconsistent fruit production over time. In this study, we investigated whether a flowering-related gene, citrus FLOWERING LOCUS T (CiFT), can be used to predict floral production. We quantified CiFT expression levels in stems of Satsuma mandarin (Citrus unshiu Marc.) trees planted at two remote locations. We collected samples over 3 years, and determined that the CiFT mRNA levels in November were strongly correlated with the number of flowers produced the following spring. The correlation between CiFT expression and floral production exhibited almost no differences among years or between sample collection sites. Thus, the CiFT expression level in November can be used to predict the number of flowers the following spring, and this prediction method can be used at different locations and over several years. To verify the practical utility of this method, Satsuma mandarin shoots were transported in November from eight locations across Japan to our laboratory under cool conditions. Transport times were approximately 4–72 h, and samples were immediately frozen upon arrival. The CiFT expression levels in transported stems correlated with the number of flowers in the following spring. Additionally, those correlations were similar in transported samples and samples that were frozen immediately after collection. Our results suggest that the number of flowers can be predicted even with the CiFT expression levels quantified in transported samples.

著者

Keisuke Nonaka Hiroshi Fujii Masayuki Kita Takehiko Shimada Tomoko Endo Terutaka Yoshioka Mitsuo Omura

出版者

一般社団法人 園芸学会

雑誌

The Horticulture Journal (ISSN:21890102)

巻号頁・発行日

pp.OKD-026, (Released:2016-10-04)

被引用文献数

14

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To protect the rights of breeders of the major citrus cultivars developed under breeding programs by the national institute of Japan, we developed a method of cultivar identification based on cleaved amplified polymorphic sequence (CAPS) markers, and used it to evaluate their identity and parentage. We selected 19 CAPS markers that had a single-locus origin and moderate polymorphism, and used them to construct genotyping data for 59 citrus cultivars (including American accessions), local varieties, and selections. Of the 19 CAPS markers, 8 were sufficient to discriminate among all accessions except ‘Mato’ buntan (Citrus grandis Osbeck) and ‘Hirado’ buntan (Citrus grandis Osbeck). Among the 33 Japanese cultivars, the parentage of 30 agreed with that reported, but ‘Setoka’, ‘Southern Red’, and ‘Reikou’ had discrepancies at one or more loci. Using 15 to 18 CAPS markers to validate the putative parentage revealed that the seed parent of ‘Setoka’ was ‘KyEn No. 4’, not ‘Tsunonozomi’, and the pollen parent of ‘Southern Red’ was ‘Osceola’, not ponkan (C. reticulate Blanco). The seed parent of ‘Reikou’ remains unknown.