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Yuhazu M, Mikuriya S, Mori A, Dwiyanti MS, Senda M, Kanazawa A. Pigmentation of soybean seed coats via a mutation that abolishes production of multiple-phased siRNAs of chalcone synthase genes. Genes Genet Syst 2024; 99:n/a. [PMID: 38382925 DOI: 10.1266/ggs.23-00260] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/23/2024] Open
Abstract
Lack of pigmentation in seed coats of soybean is caused by natural RNA silencing of chalcone synthase (CHS) genes. This phenomenon is an evolutionary consequence of structural changes in DNA that resulted in the production of double-stranded RNAs (dsRNAs) that trigger RNA degradation. Here we determined that a mutant with pigmented seed coats derived from a cultivar that lacked the pigmentation had a deletion between DNA regions ICHS1 and a cytochrome P450 gene; the deletion included GmIRCHS, a candidate gene that triggers CHS RNA silencing via production of CHS dsRNAs. We also characterized CHS short interfering RNAs (siRNAs) produced in the wild-type seed coats that had CHS RNA silencing. Phased 21-nt CHS siRNAs were detected in all 21 phases and were widely distributed in exon 2 of CHS7, which indicates commonality in the pattern of RNA degradation in natural CHS RNA silencing between distantly related species. These results with the similarities in the rearrangements found in spontaneous mutants suggest that the structural organization that generates dsRNAs that trigger phased siRNA production is vulnerable to further structural changes, which eventually abolish the induction of RNA silencing.
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Affiliation(s)
| | - Shun Mikuriya
- Research Faculty of Agriculture, Hokkaido University
| | - Ayumi Mori
- Research Faculty of Agriculture, Hokkaido University
| | | | - Mineo Senda
- Faculty of Agriculture and Life Science, Hirosaki University
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2
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Yamaguchi N, Sato Y, Taguchi-Shiobara F, Yamashita K, Kawasaki M, Ishimoto M, Senda M. A novel QTL associated with tolerance to cold-induced seed cracking in the soybean cultivar Toyomizuki. BREEDING SCIENCE 2023; 73:204-211. [PMID: 37404349 PMCID: PMC10316309 DOI: 10.1270/jsbbs.22066] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/05/2022] [Accepted: 12/25/2022] [Indexed: 07/06/2023]
Abstract
Low temperatures after flowering cause seed cracking (SC) in soybean. Previously, we reported that proanthocyanidin accumulation on the dorsal side of the seed coat, controlled by the I locus, may lead to cracked seeds; and that homozygous IcIc alleles at the I locus confer SC tolerance in the line Toiku 248. To discover new genes related to SC tolerance, we evaluated the physical and genetic mechanisms of SC tolerance in the cultivar Toyomizuki (genotype II). Histological and texture analyses of the seed coat revealed that the ability to maintain hardness and flexibility under low temperature, regardless of proanthocyanidin accumulation in the dorsal seed coat, contributes to SC tolerance in Toyomizuki. This indicated that the SC tolerance mechanism differed between Toyomizuki and Toiku 248. A quantitative trait loci (QTL) analysis of recombinant inbred lines revealed a new, stable QTL related to SC tolerance. The relationship between this new QTL, designated as qCS8-2, and SC tolerance was confirmed in residual heterozygous lines. The distance between qCS8-2 and the previously identified QTL qCS8-1, which is likely the Ic allele, was estimated to be 2-3 Mb, so it will be possible to pyramid these regions to develop new cultivars with increased SC tolerance.
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Affiliation(s)
- Naoya Yamaguchi
- Hokkaido Research Organization Tokachi Agricultural Experiment Station, Shinsei, Memuro-cho, Kasai-gun, Hokkaido 082-0081, Japan
| | - Yumi Sato
- Faculty of Agriculture and Life Science, Hirosaki University, Bunkyo, Hirosaki, Aomori 036-8561, Japan
| | - Fumio Taguchi-Shiobara
- Institute of Crop Science, The National Agriculture and Food Research Organization, Tsukuba, Ibaraki 305-8518, Japan
| | - Kazuki Yamashita
- Faculty of Agriculture and Life Science, Hirosaki University, Bunkyo, Hirosaki, Aomori 036-8561, Japan
| | - Michio Kawasaki
- Faculty of Agriculture and Life Science, Hirosaki University, Bunkyo, Hirosaki, Aomori 036-8561, Japan
| | - Masao Ishimoto
- Institute of Crop Science, The National Agriculture and Food Research Organization, Tsukuba, Ibaraki 305-8518, Japan
| | - Mineo Senda
- Faculty of Agriculture and Life Science, Hirosaki University, Bunkyo, Hirosaki, Aomori 036-8561, Japan
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Novel Seed Size: A Novel Seed-Developing Gene in Glycine max. Int J Mol Sci 2023; 24:ijms24044189. [PMID: 36835599 PMCID: PMC9967547 DOI: 10.3390/ijms24044189] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2023] [Revised: 02/09/2023] [Accepted: 02/13/2023] [Indexed: 02/22/2023] Open
Abstract
Soybean-seed development is controlled in multiple ways, as in many known regulating genes. Here, we identify a novel gene, Novel Seed Size (NSS), involved in seed development, by analyzing a T-DNA mutant (S006). The S006 mutant is a random mutant of the GmFTL4pro:GUS transgenic line, with phenotypes with small and brown seed coats. An analysis of the metabolomics and transcriptome combined with RT-qPCR in the S006 seeds revealed that the brown coat may result from the increased expression of chalcone synthase 7/8 genes, while the down-regulated expression of NSS leads to small seed size. The seed phenotypes and a microscopic observation of the seed-coat integument cells in a CRISPR/Cas9-edited mutant nss1 confirmed that the NSS gene conferred small phenotypes of the S006 seeds. As mentioned in an annotation on the Phytozome website, NSS encodes a potential DNA helicase RuvA subunit, and no such genes were previously reported to be involved in seed development. Therefore, we identify a novel gene in a new pathway controlling seed development in soybeans.
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Tabara M, Yamanashi R, Kuriyama K, Koiwa H, Fukuhara T. The dicing activity of DCL3 and DCL4 is negatively affected by flavonoids. PLANT MOLECULAR BIOLOGY 2023; 111:107-116. [PMID: 36219366 DOI: 10.1007/s11103-022-01314-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/22/2021] [Accepted: 09/26/2022] [Indexed: 06/16/2023]
Abstract
The dicing activities of DCL3 and DCL4 are inhibited by accumulated metabolites in soybean leaves. Epicatechin and 7,4'-dihydroxyflavone inhibited Arabidopsis DCL3 and DCL4 in vitro. Flavonoids are major secondary metabolites in plants, and soybean (Glycine max L.) is a representative plant that accumulates flavonoids, including isoflavonoids, to high levels. Naturally-occurring RNA interference (RNAi) against the chalcone synthase (CHS) gene represses flavonoid (anthocyanin) biosynthesis in an organ-specific manner, resulting in a colorless (yellow) seed coat in many soybean cultivars. To better understand seed coat-specific naturally-occurring RNAi in soybean, we characterized soybean Dicer-like (DCL) 3 and 4, which play critical roles in RNAi. Using a previously established dicing assay, two dicing activities producing 24- and 21-nt siRNAs, corresponding to DCL3 and DCL4, respectively, were detected in soybean. Dicing activity was detected in colorless seed coats where RNAi against CHS genes was found, but no dicing activity was detected in leaves where CHS expression was prevalent. Biochemical analysis revealed that soybean leaves contained two types of inhibitors effective for Arabidopsis Dicers (AtDCL3 and AtDCL4), one of which was a heat-labile high molecular weight compound of 50 to 100 kD while another was a low molecular weight substance. We found that some flavonoids, such as epicatechin and 7,4'-dihydroxyflavone, inhibited both AtDCL3 and AtDCL4, but AtDCL4 was more sensitive to these flavonoids than AtDCL3. These results suggest that flavonoids inhibit the dicing activity of DCL4 and thereby attenuate RNAi in soybean leaves.
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Affiliation(s)
- Midori Tabara
- Ritsumeikan-Global Innovation Research Organization, Ritsumeikan University, 1-1-1, Noji-Higashi, Kusatsu, Shiga, 525-8577, Japan.
- Institute of Global Innovation Research, Tokyo University of Agriculture and Technology, 3-5-8 Saiwaicho, Fuchu, Tokyo, 183-8509, Japan.
- Department of Applied Biological Sciences, Tokyo University of Agriculture and Technology, 3-5-8 Saiwaicho, Fuchu, Tokyo, 183-8509, Japan.
| | - Riho Yamanashi
- Department of Applied Biological Sciences, Tokyo University of Agriculture and Technology, 3-5-8 Saiwaicho, Fuchu, Tokyo, 183-8509, Japan
| | - Kazunori Kuriyama
- Department of Applied Biological Sciences, Tokyo University of Agriculture and Technology, 3-5-8 Saiwaicho, Fuchu, Tokyo, 183-8509, Japan
| | - Hisashi Koiwa
- Institute of Global Innovation Research, Tokyo University of Agriculture and Technology, 3-5-8 Saiwaicho, Fuchu, Tokyo, 183-8509, Japan
- Vegetable and Fruit Improvement Center and Department of Horticultural Sciences, Texas A&M University, College Station, TX, 77843, USA
| | - Toshiyuki Fukuhara
- Institute of Global Innovation Research, Tokyo University of Agriculture and Technology, 3-5-8 Saiwaicho, Fuchu, Tokyo, 183-8509, Japan
- Department of Applied Biological Sciences, Tokyo University of Agriculture and Technology, 3-5-8 Saiwaicho, Fuchu, Tokyo, 183-8509, Japan
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Yamaguchi N, Suzuki C, Yamashita Y, Senda M. A pubescence color gene enhances tolerance to cold-induced seed cracking in yellow soybean. BREEDING SCIENCE 2021; 71:467-473. [PMID: 34912173 PMCID: PMC8661493 DOI: 10.1270/jsbbs.21035] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/13/2021] [Accepted: 06/14/2021] [Indexed: 06/14/2023]
Abstract
In yellow soybean, severe cold weather causes seed cracking on the dorsal side. Yellow soybeans carry the I or ii allele of the I locus and have a yellow (I) or pigmented (ii ) hilum. We previously isolated an additional allele, designated as Ic, of the I locus, and reported that yellow soybeans with the IcIc genotype may be tolerant to cold-induced seed cracking. The Ic allele by itself, however, does not confer high tolerance. The association of a pubescence color gene (T) with suppression of low-temperature-induced seed coat deterioration has been previously reported. In the present study, we tested whether T is effective for the suppression of cold-induced seed cracking using two pairs of near-isogenic lines for the T locus in the iiii or IcIc background. In both backgrounds, the cracked seed rate of the near-isogenic line with the TT genotype was significantly lower than that with the tt genotype, which indicates that T has an inhibitory effect on cold-induced seed cracking. Furthermore, we also showed that gene pyramiding of Ic and T can improve tolerance to cold-induced seed cracking. Our findings should aid the development of highly SC-tolerant cultivars in soybean breeding programs.
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Affiliation(s)
- Naoya Yamaguchi
- Hokkaido Research Organization Tokachi Agricultural Experiment Station, 2, Minami 9 sen, Shinsei, Memuro-cho, Kasai-gun, Hokkaido 082-0081, Japan
| | - Chika Suzuki
- Hokkaido Research Organization Tokachi Agricultural Experiment Station, 2, Minami 9 sen, Shinsei, Memuro-cho, Kasai-gun, Hokkaido 082-0081, Japan
| | - Yoko Yamashita
- Hokkaido Research Organization Central Agricultural Experiment Station, Higashi 6 Kita 15, Naganuma, Hokkaido 069-1395, Japan
| | - Mineo Senda
- Faculty of Agriculture and Life Sciences, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori 036-8561, Japan
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Saruta M, Ashina H, Matsumoto T, Okubo H, Hiraoka M, Kasai A, Ohnishi S, Funatsuki H, Kawasaki M, Sano T, Senda M. A major gene for tolerance to cold-induced seed coat discoloration relieves viral seed mottling in soybean. BREEDING SCIENCE 2020; 70:449-455. [PMID: 32968347 PMCID: PMC7495198 DOI: 10.1270/jsbbs.19162] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/29/2019] [Accepted: 04/06/2020] [Indexed: 06/11/2023]
Abstract
In yellow soybeans, inhibition of seed coat pigmentation by RNA silencing of CHS genes is suppressed by low temperature and a viral suppressor, resulting in 'cold-induced seed coat discoloration' and 'seed mottling', respectively. Differences exist in the degree of cold-induced seed coat discoloration among Japanese yellow soybean cultivars; for example, Toyomusume is sensitive, Toyohomare has some tolerance, and Toyoharuka is highly tolerant. In this study, we compared the degree of seed mottling severity due to soybean mosaic virus (SMV) among these three soybean cultivars. Obvious differences were found, with the order of severity as follows: Toyohomare > Toyomusume > Toyoharuka. RNA gel blot analysis indicated that CHS transcript abundance in the seed coat, which was increased by SMV infection, was responsible for the severity of seed mottling. Quantitative reverse transcription PCR analysis revealed why mottling was most severe in SMV-infected Toyohomare: the SMV titer in its seed coat was higher than in the other two infected cultivars. We further suggest that a major gene (Ic) for tolerance to cold-induced seed coat discoloration can relieve the severity of seed mottling in SMV-infected Toyoharuka.
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Affiliation(s)
- Masayasu Saruta
- National Agricultural Research Organization Western Region Agricultural Research Center, 1-3-1 Senyu, Zentsuji, Kagawa 765-8508, Japan
| | - Hirotaka Ashina
- Faculty of Agriculture and Life Sciences, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori 036-8561, Japan
| | - Takuro Matsumoto
- Faculty of Agriculture and Life Sciences, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori 036-8561, Japan
| | - Harumitsu Okubo
- Faculty of Agriculture and Life Sciences, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori 036-8561, Japan
| | - Miho Hiraoka
- Faculty of Agriculture and Life Sciences, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori 036-8561, Japan
| | - Atsushi Kasai
- Faculty of Agriculture and Life Sciences, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori 036-8561, Japan
| | - Shizen Ohnishi
- Hokkaido Research Organization Tokachi Agricultural Experiment Station, 2, Minami 9 sen, Shinsei, Memuro-cho, Kasai-gun, Hokkaido 082-0081, Japan
| | - Hideyuki Funatsuki
- National Agricultural Research Organization Hokkaido Region Agricultural Research Center, Hitsujigaoka, Sapporo, Hokkaido 062-8555, Japan
| | - Michio Kawasaki
- Faculty of Agriculture and Life Sciences, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori 036-8561, Japan
| | - Teruo Sano
- Faculty of Agriculture and Life Sciences, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori 036-8561, Japan
| | - Mineo Senda
- Faculty of Agriculture and Life Sciences, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori 036-8561, Japan
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7
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Yamaguchi N, Hagihara S, Hirai D. Field assessment of a major QTL associated with tolerance to cold-induced seed coat discoloration in soybean. BREEDING SCIENCE 2019; 69:521-528. [PMID: 31598087 PMCID: PMC6776143 DOI: 10.1270/jsbbs.19024] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/22/2019] [Accepted: 05/23/2019] [Indexed: 05/21/2023]
Abstract
In Hokkaido, the northernmost region of Japan, soybean [Glycine max (L.) Merr.] crops are damaged by cold weather. Chilling temperatures negatively affect seed appearance by causing seed coat discoloration around the hilum region, which is called cold-induced discoloration (CD). An assay for CD tolerance using a phytotron was developed, and two quantitative trait loci (QTLs) associated with CD tolerance were identified. The major QTL was located in the proximal region of the I locus, and structural variation of this locus can serve as a useful DNA marker, called the Ic marker. To use this marker in breeding programs, the effects need to be assessed under field conditions because the Ic marker has been developed solely under phytotron conditions. The aim of this study was thus to assess the effect of the Ic marker under a cool field environment. We confirmed that the Ic allele was highly effective using 27 cultivars and breeding lines including a near-isogenic line grown in the field where severe cold-weather damage occurred. This allele had no negative influence on the agronomic traits in the near-isogenic line. Our results suggest that marker-assisted selection for the Ic allele is effective for improving CD tolerance in breeding programs.
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Affiliation(s)
- Naoya Yamaguchi
- Hokkaido Research Organization Tokachi Agricultural Experiment Station,
2, Minami 9 sen, Shinsei, Memuro-cho, Kasai-gun, Hokkaido 082-0081,
Japan
- Corresponding author (e-mail: )
| | - Seiji Hagihara
- Hokkaido Research Organization Kitami Agricultural Experiment Station,
Yayoi 52, Kunneppu-cho, Tokoro-gun, Hokkaido 099-1496,
Japan
| | - Dai Hirai
- Hokkaido Research Organization Central Agricultural Experiment Station,
Higashi 6 sen Kita 15 Gou, Naganuma-cho, Yubari-gun, Hokkaido 069-1395,
Japan
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8
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Zuk M, Szperlik J, Hnitecka A, Szopa J. Temporal biosynthesis of flavone constituents in flax growth stages. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2019; 142:234-245. [PMID: 31323536 DOI: 10.1016/j.plaphy.2019.07.009] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/23/2019] [Revised: 07/04/2019] [Accepted: 07/04/2019] [Indexed: 05/20/2023]
Abstract
Previous studies showed that chalcone synthase (chs) silencing in flax (Linum usitatisimum) induces a signal transduction cascade that leads to extensive modification of plant metabolism. Result presented in the current study, performed on field grown flax plants - (across the whole vegetation period) demonstrates that, in addition to its role in tannin and lignin biosynthesis, the chs gene also participates in the regulation of flavone biosynthesis during plant growth. Apigenin and luteolin glycosides constitute the flavones, the major group of flavonoids in flax. Alterations in their levels correlate with plant growth, peaking at the flower initiation stage. Suppression of chs gene expression causes significant changes in the ratio of flavone constituents at the early stage of flax growth. A significant correlation between flavonoid 3'-hydroxylase (F3'H) gene expression and accumulation of luteolin glycosides has been found, indicating that flavone biosynthesis during flax growth and development is regulated by temporal expression of this gene. The lack of such a correlation between the flavone synthase (FNS) gene and flavone accumulation in the course of plant growth suggests that the main route of flavone biosynthesis is mediated by eriodictyol. This is the first report indicating the ratio of flavone constituents as a potent marker of flax growth stages and temporal expression of F3'H, the key gene of their biosynthesis.
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Affiliation(s)
- Magdalena Zuk
- Department of Genetic Biochemistry, Faculty of Biotechnology, Wroclaw University, Przybyszewskiego 63, 51-148, Wroclaw, Poland; Linum Foundation, Wroclaw, Poland.
| | - Jakub Szperlik
- Department of Genetic Biochemistry, Faculty of Biotechnology, Wroclaw University, Przybyszewskiego 63, 51-148, Wroclaw, Poland
| | - Agata Hnitecka
- Department of Genetic Biochemistry, Faculty of Biotechnology, Wroclaw University, Przybyszewskiego 63, 51-148, Wroclaw, Poland
| | - Jan Szopa
- Linum Foundation, Wroclaw, Poland; Department of Genetics, Plant Breeding and Seed Production, Wroclaw University of Environmental and Life Sciences, pl. Grunwaldzki 24a, 50-363, Wroclaw, Poland
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Senda M, Kawasaki M, Hiraoka M, Yamashita K, Maeda H, Yamaguchi N. Occurrence and tolerance mechanisms of seed cracking under low temperatures in soybean (Glycine max). PLANTA 2018; 248:369-379. [PMID: 29737417 DOI: 10.1007/s00425-018-2912-z] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/19/2017] [Accepted: 04/29/2018] [Indexed: 05/22/2023]
Abstract
MAIN CONCLUSION In soybean, occurrence of, or tolerance to, seed cracking under low temperatures may be related to the presence or absence, respectively, of proanthocyanidin accumulation in the seed coat dorsal region. Soybean seeds sometimes undergo cracking during low temperatures in summer. In this study, we focused on the occurrence and tolerance mechanisms of low-temperature-induced seed cracking in the sensitive yellow soybean cultivar Yukihomare and the tolerant yellow soybean breeding line Toiku 248. Yukihomare exhibited seed cracking when subjected to a 21-day low-temperature treatment from 10 days after flowering. In yellow soybeans, seed coat pigmentation is inhibited, leading to low proanthocyanidin levels in the seed coat. Proanthocyanidins accumulated on the dorsal side of the seed coat in Yukihomare under the 21-day low-temperature treatment. In addition, a straight seed coat split occurred on the dorsal side at the full-sized seed stage, resulting in seed cracking in this cultivar. Conversely, proanthocyanidin accumulation was suppressed throughout the seed coat in low-temperature-treated Toiku 248. We propose the following mechanism of seed cracking: proanthocyanidin accumulation and subsequent lignin deposition under low temperatures affects the physical properties of the seed coat, making it more prone to splitting. Further analyses uncovered differences in the physical properties of the seed coat between Yukihomare and Toiku 248. In particular, seed coat hardness decreased in Yukihomare, but not in Toiku 248, under the low-temperature treatment. Seed coat flexibility was higher in Toiku 248 than in Yukihomare under the low-temperature treatment, suggesting that the seed coat of low-temperature-treated Toiku 248 is more flexible than that of low-temperature-treated Yukihomare. These physical properties of the Toiku 248 seed coat observed under low-temperature conditions may contribute to its seed-cracking tolerance.
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Affiliation(s)
- Mineo Senda
- Faculty of Agriculture and Life Science, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori, 036-8561, Japan.
| | - Michio Kawasaki
- Faculty of Agriculture and Life Science, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori, 036-8561, Japan
| | - Miho Hiraoka
- Faculty of Agriculture and Life Science, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori, 036-8561, Japan
| | - Kazuki Yamashita
- Faculty of Agriculture and Life Science, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori, 036-8561, Japan
| | - Hayato Maeda
- Faculty of Agriculture and Life Science, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori, 036-8561, Japan
| | - Naoya Yamaguchi
- Hokkaido Research Organization, Tokachi Agricultural Experiment Station, Shinsei, Memuro-cho, Kasai-gun, Hokkaido, 082-0081, Japan
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Senda M, Yamaguchi N, Hiraoka M, Kawada S, Iiyoshi R, Yamashita K, Sonoki T, Maeda H, Kawasaki M. Accumulation of proanthocyanidins and/or lignin deposition in buff-pigmented soybean seed coats may lead to frequent defective cracking. PLANTA 2017; 245:659-670. [PMID: 27995313 DOI: 10.1007/s00425-016-2638-8] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/27/2016] [Accepted: 12/08/2016] [Indexed: 06/06/2023]
Abstract
MAIN CONCLUSION Defective cracking frequently occurs in buff-pigmented soybean seed coats, where proanthocyanidins accumulate and lignin is deposited, suggesting that proanthocyanidins and/or lignin may change physical properties and lead to defective cracking. In the seed production of many yellow soybean (Glycine max) cultivars, very low percentages of self-pigmented seeds are commonly found. This phenomenon is derived from a recessive mutation of the I gene inhibiting seed coat pigmentation. In Japan, most of these self-pigmented seeds are buff-colored, and frequently show multiple defective cracks in the seed coat. However, it is not known why cracking occurs specifically in buff seed coats. In this study, quantitative analysis was performed between yellow and buff soybean seed coats. Compared with yellow soybeans, in which defective cracking rarely occurs, contents of proanthocyanidins (PAs) and lignin were significantly higher in buff seed coats. Histochemical data of PAs and lignin in the seed coats strongly supported this result. Measurements of the physical properties of seed coats using a texture analyzer showed that a hardness value was significantly decreased in the buff seed coats. These results suggest that PA accumulation and/or lignin deposition may affect the physical properties of buff seed coats and lead to the defective cracking. This work contributes to understanding of the mechanism of defective cracking, which decreases the seed quality of soybean and related legumes.
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Affiliation(s)
- Mineo Senda
- Faculty of Agriculture and Life Science, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori, 036-8561, Japan.
| | - Naoya Yamaguchi
- Hokkaido Research Organization Tokachi Agricultural Experiment Station, 2, Minami 9 sen, Shinsei, Memuro-cho, Kasai-gun, Hokkaido, 082-0081, Japan
| | - Miho Hiraoka
- Faculty of Agriculture and Life Science, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori, 036-8561, Japan
| | - So Kawada
- Faculty of Agriculture and Life Science, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori, 036-8561, Japan
| | - Ryota Iiyoshi
- Faculty of Agriculture and Life Science, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori, 036-8561, Japan
| | - Kazuki Yamashita
- Faculty of Agriculture and Life Science, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori, 036-8561, Japan
| | - Tomonori Sonoki
- Faculty of Agriculture and Life Science, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori, 036-8561, Japan
| | - Hayato Maeda
- Faculty of Agriculture and Life Science, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori, 036-8561, Japan
| | - Michio Kawasaki
- Faculty of Agriculture and Life Science, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori, 036-8561, Japan
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11
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Zhang LQ, Wei K, Cheng H, Wang LY, Zhang CC. Accumulation of catechins and expression of catechin synthetic genes in Camellia sinensis at different developmental stages. BOTANICAL STUDIES 2016; 57:31. [PMID: 28597441 PMCID: PMC5430556 DOI: 10.1186/s40529-016-0143-9] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/06/2016] [Accepted: 10/04/2016] [Indexed: 05/07/2023]
Abstract
BACKGROUND Catechins are the main polyphenol compounds in tea (Camellia sinensis). To understand the relationship between gene expression and product accumulation, the levels of catechins and relative expressions of key genes in tea leaves of different developmental stages were analyzed. RESULTS The amounts of catechins differed significantly in leaves of different stages, except for gallocatechin gallate. Close correlations between the expression of synthesis genes and the accumulation of catechins were identified. Correlation analysis showed that the expressions of chalcone synthase 1, chalcone synthase 3, anthocyanidin reductase 1, anthocyanidin reductase 2 and leucoanthocyanidin reductase genes were significantly and positively correlated with total catechin contents, suggesting their expression may largely affect total catechin accumulation. Anthocyanidin synthase was significantly correlated with catechin. While both ANRs and LAR were significantly and positively correlated with the contents of (-)-epigallocatechin gallate and (-)-epicatechin gallate. CONCLUSION Our results suggest synergistic changes between the expression of synthetic genes and the accumulation of catechins. Based on our findings, anthocyanidin synthase may regulate earlier steps in the conversion of catechin, while the anthocyanidin reductase and leucoanthocyanidin reductase genes may both play important roles in the biosynthesis of galloylated catechins.
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Affiliation(s)
- Li-Qun Zhang
- Key Laboratory of Tea Biology and Resources Utilization, Tea Research Institute Chinese Academy of Agricultural Sciences, National Center for Tea Improvement, Ministry of Agriculture, No. 9, Meiling South Road, Xihu District, Hangzhou, 310008 Zhejiang China
| | - Kang Wei
- Key Laboratory of Tea Biology and Resources Utilization, Tea Research Institute Chinese Academy of Agricultural Sciences, National Center for Tea Improvement, Ministry of Agriculture, No. 9, Meiling South Road, Xihu District, Hangzhou, 310008 Zhejiang China
| | - Hao Cheng
- Key Laboratory of Tea Biology and Resources Utilization, Tea Research Institute Chinese Academy of Agricultural Sciences, National Center for Tea Improvement, Ministry of Agriculture, No. 9, Meiling South Road, Xihu District, Hangzhou, 310008 Zhejiang China
| | - Li-Yuan Wang
- Key Laboratory of Tea Biology and Resources Utilization, Tea Research Institute Chinese Academy of Agricultural Sciences, National Center for Tea Improvement, Ministry of Agriculture, No. 9, Meiling South Road, Xihu District, Hangzhou, 310008 Zhejiang China
| | - Cheng-Cai Zhang
- Key Laboratory of Tea Biology and Resources Utilization, Tea Research Institute Chinese Academy of Agricultural Sciences, National Center for Tea Improvement, Ministry of Agriculture, No. 9, Meiling South Road, Xihu District, Hangzhou, 310008 Zhejiang China
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12
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Takagi K, Nishizawa K, Hirose A, Kurauchi T, Senda M, Masuta C, Ishimoto M. Seed coat pigmentation in transgenic soybean expressing the silencing suppressor 2b gene of Cucumber mosaic virus. PLANT CELL REPORTS 2013; 32:1903-12. [PMID: 24022064 DOI: 10.1007/s00299-013-1502-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/30/2013] [Revised: 08/21/2013] [Accepted: 08/26/2013] [Indexed: 06/02/2023]
Abstract
KEY MESSAGE Soybean expressing the Cucumber mosaic virus 2b gene manifests seed coat pigmentation due to suppression of endogenous RNA silencing but no other morphological abnormality. This gene may help prevent transgene silencing. RNA silencing is an important mechanism for gene regulation and antiviral defense in plants. It is also responsible for transgene silencing, however, and thus hinders the establishment of transgenic plants. The 2b protein of Cucumber mosaic virus (CMV) functions as a suppressor of RNA silencing and therefore might prove beneficial for stabilization of transgene expression. We have now generated transgenic soybean that harbors the 2b gene of a CMV-soybean strain under the control of a constitutive promoter to investigate the effects of 2b expression. No growth abnormality was apparent in 2b transgenic plants, although the seed coat was pigmented in several of the transgenic lines. Genes for chalcone synthase (CHS), a key enzyme of the flavonoid pathway, are posttranscriptionally silenced by the inhibitor (I) locus in nonpigmented (yellow) soybean seeds. The levels of CHS mRNA and CHS small interfering RNA in strongly pigmented 2b transgenic seed coats were higher and lower, respectively, than those in the seed coat of a control transgenic line. The expression level of 2b also correlated with the extent of seed coat pigmentation. On the other hand, introduction of the 2b gene together with the DsRed2 gene into somatic embryos prevented the time-dependent decrease in transient DsRed2 expression. Our results indicate that the 2b gene alone is able to suppress RNA silencing of endogenous CHS genes regulated by the I locus, and that 2b is of potential utility for stabilization of transgene expression in soybean without detrimental effects other than seed coat pigmentation.
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13
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Senda M, Nishimura S, Kasai A, Yumoto S, Takada Y, Tanaka Y, Ohnishi S, Kuroda T. Comparative analysis of the inverted repeat of a chalcone synthase pseudogene between yellow soybean and seed coat pigmented mutants. BREEDING SCIENCE 2013; 63:384-92. [PMID: 24399910 PMCID: PMC3859349 DOI: 10.1270/jsbbs.63.384] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/31/2013] [Accepted: 08/17/2013] [Indexed: 05/13/2023]
Abstract
In soybean, the I gene inhibits pigmentation over the entire seed coat, resulting in yellow seeds. It is thought that this suppression of seed coat pigmentation is due to naturally occurring RNA silencing of chalcone synthase genes (CHS silencing). Fully pigmented seeds can be found among harvested yellow seeds at a very low percentage. These seed coat pigmented (scp) mutants are generated from yellow soybeans by spontaneous recessive mutation of the I gene. A candidate for the I gene, GmIRCHS, contains a perfect inverted repeat (IR) of a CHS pseudogene (pseudoCHS3) and transcripts of GmIRCHS form a double-stranded CHS RNA that potentially triggers CHS silencing. One CHS gene, ICHS1, is located 680 bp downstream of GmIRCHS. Here, the GmIRCHS-ICHS1 cluster was compared in scp mutants of various origins. In these mutants, sequence divergence in the cluster resulted in complete or partial loss of GmIRCHS in at least the pseudoCHS3 region. This result is consistent with the notion that the IR of pseudoCHS3 is sufficient to induce CHS silencing, and further supports that GmIRCHS is the I gene.
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Affiliation(s)
- Mineo Senda
- Faculty of Agriculture and Life Sciences, Hirosaki University,
3 Bunkyo-cho, Hirosaki, Aomori 036-8561,
Japan
- Corresponding author (e-mail: )
| | - Satsuki Nishimura
- Faculty of Agriculture and Life Sciences, Hirosaki University,
3 Bunkyo-cho, Hirosaki, Aomori 036-8561,
Japan
| | - Atsushi Kasai
- Faculty of Agriculture and Life Sciences, Hirosaki University,
3 Bunkyo-cho, Hirosaki, Aomori 036-8561,
Japan
| | - Setsuzo Yumoto
- Research Support Center, National Agricultural Research Center for Tohoku Region,
Yotsuya, Daisen, Akita 014-0102,
Japan
| | - Yoshitake Takada
- National Agricultural Research Organization (NARO) Western Region Agricultural Research Center,
1-3-1 Senyu, Zentsuji, Kagawa 765-8508,
Japan
| | - Yoshinori Tanaka
- Hokkaido Research Organization Tokachi Agricultural Experiment Station,
S9-2 Shinsei, Memuro, Kasai, Hokkaido 082-0081,
Japan
| | - Shizen Ohnishi
- Hokkaido Research Organization Kitami Agricultural Experiment Station,
52 Yayoi, Kunneppu, Tokoro, Hokkaido 099-1406,
Japan
| | - Tomohisa Kuroda
- Niigata Agricultural Research Institute,
857 Nagakura-machi, Nagaoka, Niigata 940-0826,
Japan
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14
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Cho YB, Jones SI, Vodkin L. The transition from primary siRNAs to amplified secondary siRNAs that regulate chalcone synthase during development of Glycine max seed coats. PLoS One 2013; 8:e76954. [PMID: 24204712 PMCID: PMC3804491 DOI: 10.1371/journal.pone.0076954] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2013] [Accepted: 08/27/2013] [Indexed: 11/19/2022] Open
Abstract
The I locus is a 27-kb inverted repeat cluster of chalcone synthase genes CHS1-3-4 that mediates siRNA down-regulation of CHS7 and CHS8 target mRNAs during seed development leading to yellow seed coats lacking anthocyanin pigments. Here, we report small RNA sequencing of ten stages of seed development from a few days post fertilization through maturity, revealing the amplification from primary to secondary short interfering RNAs (siRNAs) occurring during development. The young seed populations had a higher proportion of siRNAs representing the CHS1-3-4 gene family members, consistent with this region as the origin of the primary siRNAs. More intriguingly, the very young seed had a higher proportion of 22-nt CHS siRNAs than did the mid-maturation seed. We infer that the primary CHS siRNAs increase during development to levels sufficient to trigger amplification of secondary CHS siRNAs from the CHS7/8 target mRNAs, enabling the total levels of 21-nt CHS siRNAs to rise dramatically. Further, we demonstrate that the soybean system exhibits tissue-specific CHS siRNA production because primary CHS siRNA levels are not sufficient to trigger secondary amplification in tissues other than the seed coat.
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Affiliation(s)
- Young B. Cho
- Department of Crop Sciences, University of Illinois, Urbana, Illinois, United States of America
| | - Sarah I. Jones
- Department of Crop Sciences, University of Illinois, Urbana, Illinois, United States of America
| | - Lila Vodkin
- Department of Crop Sciences, University of Illinois, Urbana, Illinois, United States of America
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15
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Li X, Chen L, Hong M, Zhang Y, Zu F, Wen J, Yi B, Ma C, Shen J, Tu J, Fu T. A large insertion in bHLH transcription factor BrTT8 resulting in yellow seed coat in Brassica rapa. PLoS One 2012; 7:e44145. [PMID: 22984469 PMCID: PMC3439492 DOI: 10.1371/journal.pone.0044145] [Citation(s) in RCA: 73] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2012] [Accepted: 08/01/2012] [Indexed: 11/19/2022] Open
Abstract
Yellow seed is a desirable quality trait of the Brassica oilseed species. Previously, several seed coat color genes have been mapped in the Brassica species, but the molecular mechanism is still unknown. In the present investigation, map-based cloning method was used to identify a seed coat color gene, located on A9 in B. rapa. Blast analysis with the Arabidopsis genome showed that there were 22 Arabidopsis genes in this region including at4g09820 to at4g10620. Functional complementation test exhibited a phenotype reversion in the Arabidopsis thaliana tt8-1 mutant and yellow-seeded plant. These results suggested that the candidate gene was a homolog of TRANSPARENT TESTA8 (TT8) locus. BrTT8 regulated the accumulation of proanthocyanidins (PAs) in the seed coat. Sequence analysis of two alleles revealed a large insertion of a new class of transposable elements, Helitron in yellow sarson. In addition, no mRNA expression of BrTT8 was detected in the yellow-seeded line. It indicated that the natural transposon might have caused the loss in function of BrTT8. BrTT8 encodes a basic/helix-loop-helix (bHLH) protein that shares a high degree of similarity with other bHLH proteins in the Brassica. Further expression analysis also revealed that BrTT8 was involved in controlling the late biosynthetic genes (LBGs) of the flavonoid pathway. Our present findings provided with further studies could assist in understanding the molecular mechanism involved in seed coat color formation in Brassica species, which is an important oil yielding quality trait.
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Affiliation(s)
- Xia Li
- National Key Laboratory of Crop Genetic Improvement, National Center of Rapeseed Improvement in Wuhan, Huazhong Agricultural University, Wuhan, P.R. China
| | - Li Chen
- Guizhou Rapeseed Institute, Guizhou Academy of Agricultural Sciences, Guiyang, P.R. China
| | - Meiyan Hong
- National Key Laboratory of Crop Genetic Improvement, National Center of Rapeseed Improvement in Wuhan, Huazhong Agricultural University, Wuhan, P.R. China
| | - Yan Zhang
- Vegetable Research Institute, Guangdong Academy of Agriculture Sciences, Guangdong, P.R. China
| | - Feng Zu
- Industrial Crop Research Institute, Yunnan Academy of Agricultural Science, Kunming, P.R. China
| | - Jing Wen
- National Key Laboratory of Crop Genetic Improvement, National Center of Rapeseed Improvement in Wuhan, Huazhong Agricultural University, Wuhan, P.R. China
| | - Bin Yi
- National Key Laboratory of Crop Genetic Improvement, National Center of Rapeseed Improvement in Wuhan, Huazhong Agricultural University, Wuhan, P.R. China
| | - Chaozhi Ma
- National Key Laboratory of Crop Genetic Improvement, National Center of Rapeseed Improvement in Wuhan, Huazhong Agricultural University, Wuhan, P.R. China
| | - Jinxiong Shen
- National Key Laboratory of Crop Genetic Improvement, National Center of Rapeseed Improvement in Wuhan, Huazhong Agricultural University, Wuhan, P.R. China
| | - Jinxing Tu
- National Key Laboratory of Crop Genetic Improvement, National Center of Rapeseed Improvement in Wuhan, Huazhong Agricultural University, Wuhan, P.R. China
| | - Tingdong Fu
- National Key Laboratory of Crop Genetic Improvement, National Center of Rapeseed Improvement in Wuhan, Huazhong Agricultural University, Wuhan, P.R. China
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16
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Shamimuzzaman M, Vodkin L. Identification of soybean seed developmental stage-specific and tissue-specific miRNA targets by degradome sequencing. BMC Genomics 2012; 13:310. [PMID: 22799740 PMCID: PMC3410764 DOI: 10.1186/1471-2164-13-310] [Citation(s) in RCA: 103] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2012] [Accepted: 07/16/2012] [Indexed: 11/22/2022] Open
Abstract
BACKGROUND MicroRNAs (miRNAs) regulate the expression of target genes by mediating gene silencing in both plants and animals. The miRNA targets have been extensively investigated in Arabidopsis and rice using computational prediction, experimental validation by overexpression in transgenic plants, and by degradome or PARE (parallel analysis of RNA ends) sequencing. However, miRNA targets mostly remain unknown in soybean (Glycine max). More specifically miRNA mediated gene regulation at different seed developmental stages in soybean is largely unexplored. In order to dissect miRNA guided gene regulation in soybean developing seeds, we performed a transcriptome-wide experimental method using degradome sequencing to directly detect cleaved miRNA targets. RESULTS In this study, degradome libraries were separately prepared from immature soybean cotyledons representing three stages of development and from seed coats of two stages. Sequencing and analysis of 10 to 40 million reads from each library resulted in identification of 183 different targets for 53 known soybean miRNAs. Among these, some were found only in the cotyledons representing cleavage by 25 miRNAs and others were found only in the seed coats reflecting cleavage by 12 miRNAs. A large number of targets for 16 miRNAs families were identified in both tissues irrespective of the stage. Interestingly, we identified more miRNA targets in the desiccating cotyledons of late seed maturation than in immature seed. We validated four different auxin response factor genes as targets for gma-miR160 via RNA ligase mediated 5' rapid amplification of cDNA ends (RLM-5'RACE). Gene Ontology (GO) analysis indicated the involvement of miRNA target genes in various cellular processes during seed development. CONCLUSIONS The miRNA targets in both the cotyledons and seed coats of several stages of soybean seed development have been elucidated by experimental evidence from comprehensive, high throughput sequencing of the enriched fragments resulting from miRNA-guided cleavage of messenger RNAs. Nearly 50% of the miRNA targets were transcription factors in pathways that are likely important in setting or maintaining the developmental program leading to high quality soybean seeds that are one of the dominant sources of protein and oil in world markets.
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Affiliation(s)
- Md Shamimuzzaman
- Department of Crop Sciences, University of Illinois, Urbana, IL, 61801, USA
| | - Lila Vodkin
- Department of Crop Sciences, University of Illinois, Urbana, IL, 61801, USA
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17
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Morita Y, Saito R, Ban Y, Tanikawa N, Kuchitsu K, Ando T, Yoshikawa M, Habu Y, Ozeki Y, Nakayama M. Tandemly arranged chalcone synthase A genes contribute to the spatially regulated expression of siRNA and the natural bicolor floral phenotype in Petunia hybrida. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2012; 70:739-49. [PMID: 22288551 DOI: 10.1111/j.1365-313x.2012.04908.x] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
The natural bicolor floral traits of the horticultural petunia (Petunia hybrida) cultivars Picotee and Star are caused by the spatial repression of the chalcone synthase A (CHS-A) gene, which encodes an anthocyanin biosynthetic enzyme. Here we show that Picotee and Star petunias carry the same short interfering RNA (siRNA)-producing locus, consisting of two intact CHS-A copies, PhCHS-A1 and PhCHS-A2, in a tandem head-to-tail orientation. The precursor CHS mRNAs are transcribed from the two CHS-A copies throughout the bicolored petals, but the mature CHS mRNAs are not found in the white tissues. An analysis of small RNAs revealed the accumulation of siRNAs of 21 nucleotides that originated from the exon 2 region of both CHS-A copies. This accumulation is closely correlated with the disappearance of the CHS mRNAs, indicating that the bicolor floral phenotype is caused by the spatially regulated post-transcriptional silencing of both CHS-A genes. Linkage between the tandemly arranged CHS-A allele and the bicolor floral trait indicates that the CHS-A allele is a necessary factor to confer the trait. We suppose that the spatially regulated production of siRNAs in Picotee and Star flowers is triggered by another putative regulatory locus, and that the silencing mechanism in this case may be different from other known mechanisms of post-transcriptional gene silencing in plants. A sequence analysis of wild Petunia species indicated that these tandem CHS-A genes originated from Petunia integrifolia and/or Petunia inflata, the parental species of P. hybrida, as a result of a chromosomal rearrangement rather than a gene duplication event.
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Affiliation(s)
- Yasumasa Morita
- Institute of Floricultural Science, National Agriculture and Food Research Organization, Tsukuba 305-8519, Japan
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18
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Song J, Guo Y, Yu LJ, Qiu LJ. [Progress in genes related to seed-coat color in soybean]. YI CHUAN = HEREDITAS 2012; 34:687-94. [PMID: 22698739 DOI: 10.3724/sp.j.1005.2012.00687] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Seed-coat color has changed from black to yellow during natural and artificial selection of cultivated soybean from wild soybean, and it is also an important morphological marker. Therefore, discovering genes related to the soybean seed-coat color will play a very important role in breeding and evolutionary study. Different seed-coat colors caused by deposition of various anthocyanin pigments. Although pigmentation has been well dissected at molecular level in several plant species, the genes controlling natural variation of seed-coat color in soybean remain to be unknown. Genes related to seed-coat color in soybean were discussed in this paper, including 5 genetic loci (I, T, W1, R and O). Locus I is located in a region that riches in chalcone synthase (CHS) genes on chromosome 8. Gene CHS is a multi-gene family with highly conserved sequences in soybean. Locus T located on chromosome 6 has been cloned and verified, which encodes a flavon-oid-3'-hydroxylase. Mutant of F3'H can not interact with the heme-binding domain due to lack of conservative domain GGEK caused by a nucleotide deletion in the coding region of F3'H. Locus R is located between A668-1 and K387-1 on chromosome 9 (linkage group K). This locus may encode a R2R3 MYB transcription factor or a UDP flavonoid 3-O glyco-syltransferase. Locus O is located between Satt207 and Satt493 on chromosome 8 (linkage group A2) and its molecular characteristics has not been characterized. Locus W1 may be a homology of F3'5'H gene.
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Affiliation(s)
- Jian Song
- College of Biological Science and Technology, Harbin Normal University, Harbin 150025, China.
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19
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Senda M, Kurauchi T, Kasai A, Ohnishi S. Suppressive mechanism of seed coat pigmentation in yellow soybean. BREEDING SCIENCE 2012; 61:523-30. [PMID: 23136491 PMCID: PMC3406792 DOI: 10.1270/jsbbs.61.523] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/06/2011] [Accepted: 08/08/2011] [Indexed: 05/14/2023]
Abstract
In soybean seeds, numerous variations in colors and pigmentation patterns exist, most of which are observed in the seed coat. Patterns of seed coat pigmentation are determined by four alleles (I, i(i), i(k) and i) of the classically defined I locus, which controls the spatial distribution of anthocyanins and proanthocyanidins in the seed coat. Most commercial soybean cultivars produce yellow seeds with yellow cotyledons and nonpigmented seed coats, which are important traits of high-quality seeds. Plants carrying the I or i(i) allele show complete inhibition of pigmentation in the seed coat or pigmentation only in the hilum, respectively, resulting in a yellow seed phenotype. Classical genetic analyses of the I locus were performed in the 1920s and 1930s but, until recently, the molecular mechanism by which the I locus regulated seed coat pigmentation remained unclear. In this review, we provide an overview of the molecular suppressive mechanism of seed coat pigmentation in yellow soybean, with the main focus on the effect of the I allele. In addition, we discuss seed coat pigmentation phenomena in yellow soybean and their relationship to inhibition of I allele action.
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Affiliation(s)
- Mineo Senda
- Faculty of Agriculture and Life Science, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori 036-8561, Japan
- Corresponding author (e-mail: )
| | - Tasuku Kurauchi
- Faculty of Agriculture and Life Science, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori 036-8561, Japan
| | - Atsushi Kasai
- Faculty of Agriculture and Life Science, Hirosaki University, 3 Bunkyo, Hirosaki, Aomori 036-8561, Japan
| | - Shizen Ohnishi
- Hokkaido Research Organization Central Agricultural Experiment Station, Higashi 6 Kita 15, Naganuma, Yubari, Hokkaido 069-1395, Japan
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