Rice (New York, N.Y.)最新文献

{"title":"Golgi-Localized OsFPN1 is Involved in Co and Ni Transport and Their Detoxification in Rice.","authors":"Manman Kan,&nbsp;Toru Fujiwara,&nbsp;Takehiro Kamiya","doi":"10.1186/s12284-022-00583-3","DOIUrl":"https://doi.org/10.1186/s12284-022-00583-3","url":null,"abstract":"<p><p>Cobalt (Co) and nickel (Ni) are beneficial and essential elements for plants, respectively, with the latter required for urease activity, which hydrolyzes urea into ammonium in plants. However, excess Co and Ni are toxic to plants and their transport mechanisms in rice are unclear. Here, we analyzed an ethyl methanesulfonate (EMS)-mutagenized rice mutant, 1187_n, with increased Co and Ni contents in its brown rice and shoots. 1187_n has a mutation in OsFPN1, which was correlated with a high Co and Ni phenotype in F₂ crosses between the parental line and mutant. In addition, CRISPR/Cas9 mutants exhibited a phenotype similar to that of 1187_n, demonstrating that OsFPN1 is the causal gene of the mutant. In addition to the high Co and Ni in brown rice and shoots, the mutant also exhibited high Co and Ni concentrations in the xylem sap, but low concentrations in the roots, suggesting that OsFPN1 is involved in the root-to-shoot translocation of Co and Ni. The growth of 1187_n and CRISPR/Cas9 lines were suppressed under high Co and Ni condition, indicating OsFPN1 is required for the normal growth under high Co and Ni. An OsFPN1-green fluorescent protein (GFP) fusion protein was localized to the Golgi apparatus. Yeast carrying GFP-OsFPN1 increased sensitivity to high Co contents and decreased Co and Ni accumulation. These results suggest that OsFPN1 can transport Co and Ni and is vital detoxification in rice.</p>","PeriodicalId":520771,"journal":{"name":"Rice (New York, N.Y.)","volume":" ","pages":"36"},"PeriodicalIF":5.5,"publicationDate":"2022-07-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9273799/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40512570","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The Methylation Inhibitor 5-Aza-2'-Deoxycytidine Induces Genome-Wide Hypomethylation in Rice.","authors":"Shuo Liu,&nbsp;Yu Bao,&nbsp;Hui Deng,&nbsp;Guanqing Liu,&nbsp;Yangshuo Han,&nbsp;Yuechao Wu,&nbsp;Tao Zhang,&nbsp;Chen Chen","doi":"10.1186/s12284-022-00580-6","DOIUrl":"https://doi.org/10.1186/s12284-022-00580-6","url":null,"abstract":"<p><p>DNA methylation is a conserved epigenetic modification which is vital for regulating gene expression and maintaining genome stability in both mammals and plants. Homozygous mutation of rice methyltransferase 1 (met1) gene can cause host death in rice, making it difficult to obtain plant material needed for hypomethylation research. To circumvent this challenge, the methylation inhibitor, 5-Aza-2'-deoxycytidine (AzaD), is used as a cytosine nucleoside analogue to reduce genome wide hypomethylation and is widely used in hypomethylation research. However, how AzaD affects plant methylation profiles at the genome scale is largely unknown. Here, we treated rice seedlings with AzaD and compared the AzaD treatment with osmet1-2 mutants, illustrating that there are similar CG hypomethylation and distribution throughout the whole genome. Along with global methylation loss class I transposable elements (TEs) which are farther from genes compared with class II TEs, were more significantly activated, and the RNA-directed DNA Methylation (RdDM) pathway was activated in specific genomic regions to compensate for severe CG loss. Overall, our results suggest that AzaD is an effective DNA methylation inhibitor that can influence genome wide methylation and cause a series of epigenetic variations.</p>","PeriodicalId":520771,"journal":{"name":"Rice (New York, N.Y.)","volume":" ","pages":"35"},"PeriodicalIF":5.5,"publicationDate":"2022-07-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9250569/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40577164","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"OsPP65 Negatively Regulates Osmotic and Salt Stress Responses Through Regulating Phytohormone and Raffinose Family Oligosaccharide Metabolic Pathways in Rice.","authors":"Qing Liu,&nbsp;Jierong Ding,&nbsp;Wenjie Huang,&nbsp;Hang Yu,&nbsp;Shaowen Wu,&nbsp;Wenyan Li,&nbsp;Xingxue Mao,&nbsp;Wenfeng Chen,&nbsp;Junlian Xing,&nbsp;Chen Li,&nbsp;Shijuan Yan","doi":"10.1186/s12284-022-00581-5","DOIUrl":"https://doi.org/10.1186/s12284-022-00581-5","url":null,"abstract":"<p><p>Although type 2C protein phosphatases (PP2Cs) have been demonstrated to play important roles in regulating plant development and various stress responses, their specific roles in rice abiotic stress tolerance are still largely unknown. In this study, the functions of OsPP65 in rice osmotic and salt stress tolerance were investigated. Here, we report that OsPP65 is responsive to multiple stresses and is remarkably induced by osmotic and salt stress treatments. OsPP65 was highly expressed in rice seedlings and leaves and localized in the nucleus and cytoplasm. OsPP65 knockout rice plants showed enhanced tolerance to osmotic and salt stresses. Significantly higher induction of genes involved in jasmonic acid (JA) and abscisic acid (ABA) biosynthesis or signaling, as well as higher contents of endogenous JA and ABA, were observed in the OsPP65 knockout plants compared with the wild-type plants after osmotic stress treatment. Further analysis indicated that JA and ABA function independently in osmotic stress tolerance conferred by loss of OsPP65. Moreover, metabolomics analysis revealed higher endogenous levels of galactose and galactinol but a lower content of raffinose in the OsPP65 knockout plants than in the wild-type plants after osmotic stress treatment. These results together suggest that OsPP65 negatively regulates osmotic and salt stress tolerance through regulation of the JA and ABA signaling pathways and modulation of the raffinose family oligosaccharide metabolism pathway in rice. OsPP65 is a promising target for improvement of rice stress tolerance using gene editing.</p>","PeriodicalId":520771,"journal":{"name":"Rice (New York, N.Y.)","volume":" ","pages":"34"},"PeriodicalIF":5.5,"publicationDate":"2022-07-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9250576/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40464098","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Rice Grain Size and Quality.","authors":"Kiyosumi Hori,&nbsp;Jian Sun","doi":"10.1186/s12284-022-00579-z","DOIUrl":"https://doi.org/10.1186/s12284-022-00579-z","url":null,"abstract":"","PeriodicalId":520771,"journal":{"name":"Rice (New York, N.Y.)","volume":" ","pages":"33"},"PeriodicalIF":5.5,"publicationDate":"2022-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9249952/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40563230","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Heat Stress During Gametogenesis Irreversibly Damages Female Reproductive Organ in Rice.","authors":"Wanju Shi,&nbsp;Juan Yang,&nbsp;Ritesh Kumar,&nbsp;Xinzheng Zhang,&nbsp;Somayanda M Impa,&nbsp;Gui Xiao,&nbsp;S V Krishna Jagadish","doi":"10.1186/s12284-022-00578-0","DOIUrl":"https://doi.org/10.1186/s12284-022-00578-0","url":null,"abstract":"<p><p>Heat stress during gametogenesis leads to spikelet sterility. To ascertain the role of female reproductive organ (pistil), two rice genotypes N22 and IR64 with contrasting heat stress responses were exposed to control (30 °C) and heat stress (38 °C and 40 °C) during megasporogenesis. Anatomical observations of ovule revealed greater disappearance of megaspore mother cell and nuclei at early stages, and during later stages mature embryo sac without female germ unit, improper positioning of nuclei, and shrunken embryo sac was observed in the sensitive IR64. Under heat stress, a decrease in sugar and starch, increase in H₂O₂ and malondialdehyde with lower antioxidant enzyme activities were recorded in pistils of both N22 and IR64. Lower accumulation of TCA cycle metabolites and amino acids were noticed in IR64 pistils under heat stress at gametogenesis, whereas N22 exhibited favorable metabolite profiles. At heading, however, N22 pistils had higher carbohydrate accumulation and better ROS homeostasis, suggesting higher recovery after heat stress exposure. In summary, the results indicate that heat stress during megasporogenesis leads to irreversible anatomical and physiological changes in pistil and alters metabolic signatures leading to increased spikelet sterility in rice. Mechanisms identified for enhanced heat tolerance in pistil can help in developing rice varieties that are better adapted to future hotter climate.</p>","PeriodicalId":520771,"journal":{"name":"Rice (New York, N.Y.)","volume":" ","pages":"32"},"PeriodicalIF":5.5,"publicationDate":"2022-06-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9240181/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40405954","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"OsWRKY62 and OsWRKY76 Interact with Importin α1s for Negative Regulation of Defensive Responses in Rice Nucleus.","authors":"Xiaohui Xu,&nbsp;Han Wang,&nbsp;Jiqin Liu,&nbsp;Shuying Han,&nbsp;Miaomiao Lin,&nbsp;Zejian Guo,&nbsp;Xujun Chen","doi":"10.1186/s12284-022-00558-4","DOIUrl":"https://doi.org/10.1186/s12284-022-00558-4","url":null,"abstract":"<p><p>Background OsWRKY62 and OsWRKY76, two close members of WRKY transcription factors, function together as transcriptional repressors. OsWRKY62 is predominantly localized in the cytosol. What are the regulatory factors for OsWRKY62 nuclear translocation? Results In this study, we characterized the interaction of OsWRKY62 and OsWRKY76 with rice importin, OsIMα1a and OsIMα1b, for nuclear translocation. Chimeric OsWRKY62.1-GFP, which is predominantly localized in the cytoplasm, was translocated to the nucleus of Nicotiana benthamiana leaf cells in the presence of OsIMα1a or OsIMαΔIBB1a lacking the auto-inhibitory importin β-binding domain. OsIMαΔIBB1a interacted with the WRKY domain of OsWRKY62.1, which has specific bipartite positively charged concatenated amino acids functioning as a nuclear localization signal (NLS). Similarly, we found that OsIMαΔIBB1a interacted with the AvrPib effector of rice blast fungus Magnaporthe oryzae, which contains a scattered distribution of positively charged amino acids. Furthermore, we identified a nuclear export signal (NES) in OsWRKY62.1 that inhibited nuclear transportation. Overexpression of OsIMα1a or OsIMα1b enhanced resistance to M. oryzae, whereas knockout mutants decreased resistance to the pathogen. However, overexpressing both OsIMα1a and OsWRKY62.1 were slightly more susceptible to M. oryzae than OsWRKY62.1 alone. Ectopic overexpression of OsWRKY62.1-NES fused gene compromised the enhanced susceptibility of OsWRKY62.1 to M. oryzae. Conclusion These results revealed the existence of NLS and NES in OsWRKY62. OsWRKY62, OsWRKY76, and AvrPib effector translocate to nucleus in association with importin α1s through new types of nuclear localization signals for negatively regulating defense responses.</p>","PeriodicalId":520771,"journal":{"name":"Rice (New York, N.Y.)","volume":" ","pages":"12"},"PeriodicalIF":5.5,"publicationDate":"2022-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8859016/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39938884","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"TAL Effectors with Avirulence Activity in African Strains of Xanthomonas oryzae pv. oryzae.","authors":"Marlène Lachaux,&nbsp;Emilie Thomas,&nbsp;Adam J Bogdanove,&nbsp;Boris Szurek,&nbsp;Mathilde Hutin","doi":"10.1186/s12284-022-00553-9","DOIUrl":"https://doi.org/10.1186/s12284-022-00553-9","url":null,"abstract":"<p><strong>Background: </strong>Xanthomonas oryzae pv. oryzae (Xoo) causes bacterial leaf blight, a devastating disease of rice. Among the type-3 effectors secreted by Xoo to support pathogen virulence, the Transcription Activator-Like Effector (TALE) family plays a critical role. Some TALEs are major virulence factors that activate susceptibility (S) genes, overexpression of which contributes to disease development. Host incompatibility can result from TALE-induced expression of so-called executor (E) genes leading to a strong and rapid resistance response that blocks disease development. In that context, the TALE functions as an avirulence (Avr) factor. To date no such avirulence factors have been identified in African strains of Xoo.</p><p><strong>Results: </strong>With respect to the importance of TALEs in the Rice-Xoo pathosystem, we aimed at identifying those that may act as Avr factor within African Xoo. We screened 86 rice accessions, and identified 12 that were resistant to two African strains while being susceptible to a well-studied Asian strain. In a gain of function approach based on the introduction of each of the nine tal genes of the avirulent African strain MAI1 into the virulent Asian strain PXO99^A, four were found to trigger resistance on specific rice accessions. Loss-of-function mutational analysis further demonstrated the avr activity of two of them, talD and talI, on the rice varieties IR64 and CT13432 respectively. Further analysis of TalI demonstrated the requirement of its activation domain for triggering resistance in CT13432. Resistance in 9 of the 12 rice accessions that were resistant against African Xoo specifically, including CT13432, could be suppressed or largely suppressed by trans-expression of the truncTALE tal2h, similarly to resistance conferred by the Xa1 gene which recognizes TALEs generally independently of their activation domain.</p><p><strong>Conclusion: </strong>We identified and characterized TalD and TalI as two African Xoo TALEs with avirulence activity on IR64 and CT13432 respectively. Resistance of CT13432 against African Xoo results from the combination of two mechanisms, one relying on the TalI-mediated induction of an unknown executor gene and the other on an Xa1-like gene or allele.</p>","PeriodicalId":520771,"journal":{"name":"Rice (New York, N.Y.)","volume":" ","pages":"9"},"PeriodicalIF":5.5,"publicationDate":"2022-02-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8816977/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39889777","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Identification of Metabolomic Biomarkers of Seed Vigor and Aging in Hybrid Rice.","authors":"Bing-Xian Chen,&nbsp;Hua Fu,&nbsp;Jia-Dong Gao,&nbsp;Yi-Xin Zhang,&nbsp;Wen-Jie Huang,&nbsp;Zhong-Jian Chen,&nbsp;Qi-Zhang,&nbsp;Shi-Juan Yan,&nbsp;Jun Liu","doi":"10.1186/s12284-022-00552-w","DOIUrl":"https://doi.org/10.1186/s12284-022-00552-w","url":null,"abstract":"<p><p>Seed deterioration during rice seed storage can lead to seed vigor loss, which adversely affects agricultural production, the long-term preservation of germplasm resources, and the conservation of species diversity. However, the mechanisms underlying seed vigor maintenance remain largely unknown. In this study, 16 hybrid rice combinations were created using four sterile lines and four restorer lines that have been widely planted in southern China. Following artificial aging and natural aging treatments, germination percentage and metabolomics analysis by gas chromatography-mass spectrometry was used to identify the metabolite markers that could accurately reflect the degree of aging of the hybrid rice seeds. Significant differences in the degree of seed deterioration were observed among the 16 hybrid rice combinations tested, with each hybrid combination having a different germination percentage after storage. The hybrid rice combination with the storage-resistant restorer line Guanghui122 exhibited the highest germination percentage under both natural and artificial storage. A total of 89 metabolic peaks and 56 metabolites were identified, most of which were related to primary metabolism. Interestingly, the content of galactose, gluconic acid, fructose and glycerol in the seeds increased significantly during the aging process. Absolute quantification indicated that galactose and gluconic acid were highly significantly negatively correlated with the germination percentage of the seeds under the different aging treatments. The galactose content was significantly positively correlated with gluconic acid content. Additionally, glycerol showed a significant negative correlation with the germination percentage in most hybrid combinations. Based on the metabolomics analysis, metabolite markers that could accurately reflect the aging degree of hybrid rice seeds were identified. Galactose and gluconic acid were highly significantly negatively correlated with the germination percentage of the seeds, which suggested that these metabolites could constitute potential metabolic markers of seed vigor and aging. These findings are of great significance for the rapid and accurate evaluation of seed aging degree, the determination of seed quality, and the development of molecular breeding approaches for high-vigor rice seeds.</p>","PeriodicalId":520771,"journal":{"name":"Rice (New York, N.Y.)","volume":" ","pages":"7"},"PeriodicalIF":5.5,"publicationDate":"2022-01-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8795261/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39864354","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Rice SIAH E3 Ligases Interact with RMD Formin and Affect Plant Morphology.","authors":"Shuwei Chang,&nbsp;Guoqiang Huang,&nbsp;Duoxiang Wang,&nbsp;Wanwan Zhu,&nbsp;Jianxin Shi,&nbsp;Litao Yang,&nbsp;Wanqi Liang,&nbsp;Qi Xie,&nbsp;Dabing Zhang","doi":"10.1186/s12284-022-00554-8","DOIUrl":"https://doi.org/10.1186/s12284-022-00554-8","url":null,"abstract":"<p><p>Formins are actin-binding proteins that are key to maintaining the actin cytoskeleton in cells. However, molecular mechanisms controlling the stability of formin proteins in plants remain unknown. Here, we have identified six rice SIAH-type E3 ligases, named RIP1-6 (RMD Interacting Protein 1-6) respectively, with ubiquitination enzyme activity in vitro. All six proteins can form homo- and hetero-dimers with themselves, and hetero-dimers with type II formin RMD/OsFH5. In vivo assays showed that RIP1-6 proteins localize in the cytoplasm with a punctate distribution, and all of them interact with RMD to change its native diffuse cytoplasmic localization to match that of RIP1-6. To our surprise, degradation experiments revealed that RIP1, RIP5, and RIP6 decrease rather than increase the degradation rate of RMD. Genetic analyses revealed redundancy between these six genes; either single or double mutants did not show any obvious phenotypes. However, the sextuple rip1-6 mutant displayed dwarf height, wrinkled seeds and wider leaves that were similar to the previously reported rmd mutant, and defective microfilaments and increased flag leaf angles that were not reported in rmd mutant. Collectively, our study provides insights into the mechanisms determining formin protein stability in plants.</p>","PeriodicalId":520771,"journal":{"name":"Rice (New York, N.Y.)","volume":" ","pages":"6"},"PeriodicalIF":5.5,"publicationDate":"2022-01-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8786996/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39718502","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Whole-Genome Sequencing of 117 Chromosome Segment Substitution Lines for Genetic Analyses of Complex Traits in Rice.","authors":"Jiongjiong Fan,&nbsp;Hua Hua,&nbsp;Zhaowei Luo,&nbsp;Qi Zhang,&nbsp;Mengjiao Chen,&nbsp;Junyi Gong,&nbsp;Xin Wei,&nbsp;Zonghua Huang,&nbsp;Xuehui Huang,&nbsp;Qin Wang","doi":"10.1186/s12284-022-00550-y","DOIUrl":"https://doi.org/10.1186/s12284-022-00550-y","url":null,"abstract":"<p><p>Rice is one of the most important food crops in Asia. Genetic analyses of complex traits and molecular breeding studies in rice greatly rely on the construction of various genetic populations. Chromosome segment substitution lines (CSSLs) serve as a powerful genetic population for quantitative trait locus (QTL) mapping in rice. Moreover, CSSLs containing target genomic regions can be used as improved varieties in rice breeding. In this study, we developed a set of CSSLs consisting of 117 lines derived from the recipient 'Huanghuazhan' (HHZ) and the donor 'Basmati Surkb 89-15' (BAS). The 117 lines were extensively genotyped by whole-genome resequencing, and a high-density genotype map was constructed for the CSSL population. The 117 CSSLs covered 99.78% of the BAS genome. Each line contained a single segment, and the average segment length was 6.02 Mb. Using the CSSL population, we investigated three agronomic traits in Shanghai and Hangzhou, China, and a total of 25 QTLs were detected in both environments. Among those QTLs, we found that RFT1 was the causal gene for heading date variance between HHZ and BAS. RFT1 from BAS was found to contain a loss-of-function allele based on yeast two-hybrid assay, and its causal variation was a P to S change in the 94th amino acid of the RFT1 protein. The combination of high-throughput genotyping and marker-assisted selection (MAS) is a highly efficient way to construct CSSLs in rice, and extensively genotyped CSSLs will be a powerful tool for the genetic mapping of agronomic traits and molecular breeding for target QTLs/genes.</p>","PeriodicalId":520771,"journal":{"name":"Rice (New York, N.Y.)","volume":" ","pages":"5"},"PeriodicalIF":5.5,"publicationDate":"2022-01-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8758858/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39817042","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}