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For: Wang T, Hou L, Jian H, Di F, Li J, Liu L. Combined QTL mapping, physiological and transcriptomic analyses to identify candidate genes involved in Brassica napus seed aging. Mol Genet Genomics 2018;293:1421-35. [PMID: 29974306 DOI: 10.1007/s00438-018-1468-8] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2018] [Accepted: 06/27/2018] [Indexed: 10/28/2022]

For:	Wang T, Hou L, Jian H, Di F, Li J, Liu L. Combined QTL mapping, physiological and transcriptomic analyses to identify candidate genes involved in Brassica napus seed aging. Mol Genet Genomics 2018;293:1421-35. [PMID: 29974306 DOI: 10.1007/s00438-018-1468-8] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2018] [Accepted: 06/27/2018] [Indexed: 10/28/2022]

Number

Cited by Other Article(s)

Weselake RJ, Fell DA, Wang X, Scofield S, Chen G, Harwood JL. Increasing oil content in Brassica oilseed species. Prog Lipid Res 2024;96:101306. [PMID: 39566857 DOI: 10.1016/j.plipres.2024.101306] [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] [Received: 08/27/2024] [Revised: 11/13/2024] [Accepted: 11/13/2024] [Indexed: 11/22/2024]

Sun S, Mi C, Ma W, Mao P. Dynamic responses of germination characteristics and antioxidant systems to alfalfa (Medicago sativa) seed aging based on transcriptome. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2024;217:109205. [PMID: 39442418 DOI: 10.1016/j.plaphy.2024.109205] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/09/2024] [Revised: 10/13/2024] [Accepted: 10/14/2024] [Indexed: 10/25/2024]

Ding Y, Hou D, Yin Y, Chen K, He J, Yan S, Li H, Xiong Y, Zhou W, Li M. Genetic dissection of Brassica napus seed vigor after aging. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2024;137:141. [PMID: 38789698 DOI: 10.1007/s00122-024-04648-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/21/2023] [Accepted: 05/10/2024] [Indexed: 05/26/2024]

Affiliation(s)

Yiran Ding Department of Biotechnology, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, 430074, China Key Laboratory of Molecular Biophysics of the Ministry of Education, Wuhan, 430074, China
Dalin Hou Department of Biotechnology, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, 430074, China Key Laboratory of Molecular Biophysics of the Ministry of Education, Wuhan, 430074, China
Yongtai Yin Department of Biotechnology, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, 430074, China Key Laboratory of Molecular Biophysics of the Ministry of Education, Wuhan, 430074, China
Kang Chen Department of Biotechnology, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, 430074, China Key Laboratory of Molecular Biophysics of the Ministry of Education, Wuhan, 430074, China
Jianjie He Department of Biotechnology, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, 430074, China Key Laboratory of Molecular Biophysics of the Ministry of Education, Wuhan, 430074, China
Shuxiang Yan Department of Biotechnology, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, 430074, China Key Laboratory of Molecular Biophysics of the Ministry of Education, Wuhan, 430074, China
Huaixin Li Department of Biotechnology, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, 430074, China Key Laboratory of Molecular Biophysics of the Ministry of Education, Wuhan, 430074, China
Yiyi Xiong Department of Biotechnology, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, 430074, China Key Laboratory of Molecular Biophysics of the Ministry of Education, Wuhan, 430074, China
Weixian Zhou Department of Biotechnology, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, 430074, China Key Laboratory of Molecular Biophysics of the Ministry of Education, Wuhan, 430074, China
Maoteng Li Department of Biotechnology, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, 430074, China. Key Laboratory of Molecular Biophysics of the Ministry of Education, Wuhan, 430074, China.

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Li F, Ye H, Wang Y, Zhou J, Zhang G, Liu X, Lu X, Wang F, Chen Q, Chen G, Xiao Y, Tang W, Deng H. Transcriptomic Profiling of Two Rice Thermo-Sensitive Genic Male Sterile Lines with Contrasting Seed Storability after Artificial Accelerated Aging Treatment. PLANTS (BASEL, SWITZERLAND) 2024;13:945. [PMID: 38611475 PMCID: PMC11013862 DOI: 10.3390/plants13070945] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/21/2024] [Revised: 03/21/2024] [Accepted: 03/22/2024] [Indexed: 04/14/2024]

Affiliation(s)

Fan Li College of Agronomy, Hunan Agricultural University, Changsha 410128, China; (F.L.); (H.Y.); (Y.W.); (J.Z.); (G.Z.); (X.L.); (X.L.); (F.W.); (Q.C.); (G.C.); (Y.X.) Hunan Provincial Key Laboratory of Rice and Rapeseed Breeding for Disease Resistance, Changsha 410128, China
Hongbing Ye College of Agronomy, Hunan Agricultural University, Changsha 410128, China; (F.L.); (H.Y.); (Y.W.); (J.Z.); (G.Z.); (X.L.); (X.L.); (F.W.); (Q.C.); (G.C.); (Y.X.) Hunan Provincial Key Laboratory of Rice and Rapeseed Breeding for Disease Resistance, Changsha 410128, China
Yingfeng Wang College of Agronomy, Hunan Agricultural University, Changsha 410128, China; (F.L.); (H.Y.); (Y.W.); (J.Z.); (G.Z.); (X.L.); (X.L.); (F.W.); (Q.C.); (G.C.); (Y.X.) Hunan Provincial Key Laboratory of Rice and Rapeseed Breeding for Disease Resistance, Changsha 410128, China
Jieqiang Zhou College of Agronomy, Hunan Agricultural University, Changsha 410128, China; (F.L.); (H.Y.); (Y.W.); (J.Z.); (G.Z.); (X.L.); (X.L.); (F.W.); (Q.C.); (G.C.); (Y.X.) Hunan Provincial Key Laboratory of Rice and Rapeseed Breeding for Disease Resistance, Changsha 410128, China
Guilian Zhang College of Agronomy, Hunan Agricultural University, Changsha 410128, China; (F.L.); (H.Y.); (Y.W.); (J.Z.); (G.Z.); (X.L.); (X.L.); (F.W.); (Q.C.); (G.C.); (Y.X.) Hunan Provincial Key Laboratory of Rice and Rapeseed Breeding for Disease Resistance, Changsha 410128, China
Xiong Liu College of Agronomy, Hunan Agricultural University, Changsha 410128, China; (F.L.); (H.Y.); (Y.W.); (J.Z.); (G.Z.); (X.L.); (X.L.); (F.W.); (Q.C.); (G.C.); (Y.X.) Hunan Provincial Key Laboratory of Rice and Rapeseed Breeding for Disease Resistance, Changsha 410128, China
Xuedan Lu College of Agronomy, Hunan Agricultural University, Changsha 410128, China; (F.L.); (H.Y.); (Y.W.); (J.Z.); (G.Z.); (X.L.); (X.L.); (F.W.); (Q.C.); (G.C.); (Y.X.) Hunan Provincial Key Laboratory of Rice and Rapeseed Breeding for Disease Resistance, Changsha 410128, China
Feng Wang College of Agronomy, Hunan Agricultural University, Changsha 410128, China; (F.L.); (H.Y.); (Y.W.); (J.Z.); (G.Z.); (X.L.); (X.L.); (F.W.); (Q.C.); (G.C.); (Y.X.) Hunan Provincial Key Laboratory of Rice and Rapeseed Breeding for Disease Resistance, Changsha 410128, China
Qiuhong Chen College of Agronomy, Hunan Agricultural University, Changsha 410128, China; (F.L.); (H.Y.); (Y.W.); (J.Z.); (G.Z.); (X.L.); (X.L.); (F.W.); (Q.C.); (G.C.); (Y.X.) Hunan Provincial Key Laboratory of Rice and Rapeseed Breeding for Disease Resistance, Changsha 410128, China
Guihua Chen College of Agronomy, Hunan Agricultural University, Changsha 410128, China; (F.L.); (H.Y.); (Y.W.); (J.Z.); (G.Z.); (X.L.); (X.L.); (F.W.); (Q.C.); (G.C.); (Y.X.) Hunan Provincial Key Laboratory of Rice and Rapeseed Breeding for Disease Resistance, Changsha 410128, China
Yunhua Xiao College of Agronomy, Hunan Agricultural University, Changsha 410128, China; (F.L.); (H.Y.); (Y.W.); (J.Z.); (G.Z.); (X.L.); (X.L.); (F.W.); (Q.C.); (G.C.); (Y.X.) Hunan Provincial Key Laboratory of Rice and Rapeseed Breeding for Disease Resistance, Changsha 410128, China
Wenbang Tang College of Agronomy, Hunan Agricultural University, Changsha 410128, China; (F.L.); (H.Y.); (Y.W.); (J.Z.); (G.Z.); (X.L.); (X.L.); (F.W.); (Q.C.); (G.C.); (Y.X.) Hunan Provincial Key Laboratory of Rice and Rapeseed Breeding for Disease Resistance, Changsha 410128, China State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha 410128, China
Huabing Deng College of Agronomy, Hunan Agricultural University, Changsha 410128, China; (F.L.); (H.Y.); (Y.W.); (J.Z.); (G.Z.); (X.L.); (X.L.); (F.W.); (Q.C.); (G.C.); (Y.X.) Hunan Provincial Key Laboratory of Rice and Rapeseed Breeding for Disease Resistance, Changsha 410128, China

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Mahmoud A, Qi R, Chi X, Liao N, Malangisha GK, Ali A, Moustafa-Farag M, Yang J, Zhang M, Hu Z. Integrated Bulk Segregant Analysis, Fine Mapping, and Transcriptome Revealed QTLs and Candidate Genes Associated with Drought Adaptation in Wild Watermelon. Int J Mol Sci 2023;25:65. [PMID: 38203237 PMCID: PMC10779233 DOI: 10.3390/ijms25010065] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2023] [Revised: 12/07/2023] [Accepted: 12/09/2023] [Indexed: 01/12/2024] Open

Affiliation(s)

Ahmed Mahmoud Institute of Vegetable Science, Zhejiang University, Hangzhou 310058, China; (A.M.); (R.Q.); (X.C.); (N.L.); (G.K.M.); (A.A.); (J.Y.); (M.Z.) Hainan Institute of Zhejiang University, Yazhou District, Sanya 572025, China Key Laboratory of Horticultural Plant Growth, Development & Quality Improvement, Ministry of Agriculture, Hangzhou 310058, China Horticulture Research Institute, Agricultural Research Center, 9 Cairo University St, Giza 12619, Egypt;
Rui Qi Institute of Vegetable Science, Zhejiang University, Hangzhou 310058, China; (A.M.); (R.Q.); (X.C.); (N.L.); (G.K.M.); (A.A.); (J.Y.); (M.Z.) Hainan Institute of Zhejiang University, Yazhou District, Sanya 572025, China
Xiaolu Chi Institute of Vegetable Science, Zhejiang University, Hangzhou 310058, China; (A.M.); (R.Q.); (X.C.); (N.L.); (G.K.M.); (A.A.); (J.Y.); (M.Z.) Hainan Institute of Zhejiang University, Yazhou District, Sanya 572025, China
Nanqiao Liao Institute of Vegetable Science, Zhejiang University, Hangzhou 310058, China; (A.M.); (R.Q.); (X.C.); (N.L.); (G.K.M.); (A.A.); (J.Y.); (M.Z.)
Guy Kateta Malangisha Institute of Vegetable Science, Zhejiang University, Hangzhou 310058, China; (A.M.); (R.Q.); (X.C.); (N.L.); (G.K.M.); (A.A.); (J.Y.); (M.Z.)
Abid Ali Institute of Vegetable Science, Zhejiang University, Hangzhou 310058, China; (A.M.); (R.Q.); (X.C.); (N.L.); (G.K.M.); (A.A.); (J.Y.); (M.Z.)
Mohamed Moustafa-Farag Horticulture Research Institute, Agricultural Research Center, 9 Cairo University St, Giza 12619, Egypt;
Jinghua Yang Institute of Vegetable Science, Zhejiang University, Hangzhou 310058, China; (A.M.); (R.Q.); (X.C.); (N.L.); (G.K.M.); (A.A.); (J.Y.); (M.Z.) Hainan Institute of Zhejiang University, Yazhou District, Sanya 572025, China Key Laboratory of Horticultural Plant Growth, Development & Quality Improvement, Ministry of Agriculture, Hangzhou 310058, China
Mingfang Zhang Institute of Vegetable Science, Zhejiang University, Hangzhou 310058, China; (A.M.); (R.Q.); (X.C.); (N.L.); (G.K.M.); (A.A.); (J.Y.); (M.Z.) Hainan Institute of Zhejiang University, Yazhou District, Sanya 572025, China Key Laboratory of Horticultural Plant Growth, Development & Quality Improvement, Ministry of Agriculture, Hangzhou 310058, China
Zhongyuan Hu Institute of Vegetable Science, Zhejiang University, Hangzhou 310058, China; (A.M.); (R.Q.); (X.C.); (N.L.); (G.K.M.); (A.A.); (J.Y.); (M.Z.) Hainan Institute of Zhejiang University, Yazhou District, Sanya 572025, China Key Laboratory of Horticultural Plant Growth, Development & Quality Improvement, Ministry of Agriculture, Hangzhou 310058, China

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Luo Y, Zhang Y, Le J, Li Q, Mou J, Deng S, Li J, Wang R, Deng Z, Liu J. Full-Length Transcriptome Sequencing Reveals the Molecular Mechanism of Metasequoia glyptostroboides Seed Responding to Aging. Antioxidants (Basel) 2023;12:1353. [PMID: 37507893 PMCID: PMC10376015 DOI: 10.3390/antiox12071353] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2023] [Revised: 06/20/2023] [Accepted: 06/21/2023] [Indexed: 07/30/2023] Open

Abstract

Metasequoia glyptostroboides, Hu and W. C. Cheng, as the only surviving relict species of the Taxodiaceae Metasequoia genus, is a critically endangered and protected species in China. There is a risk of extinction due to the low vigor of M. glyptostroboides seeds, and the physiological mechanism of seed aging in M. glyptostroboides is not yet clear. In order to investigate the physiological and molecular mechanisms underlying the aging process of M. glyptostroboides seeds, we analyzed the antioxidant system and transcriptome at 0, 2, 4, 6, and 8 days after artificial accelerated aging treatment at 40 °C and 100% relative humidity. It was found that the germination percentage of fresh dried M. glyptostroboides seeds was 54 ± 5.29%, and significantly declined to 9.33 ± 1.88% after 6 days of aging, and then gradually decreased until the seed died on day 8. Superoxide dismutase (SOD) activity, ascorbic acid (AsA), glutathione (GSH) content and superoxide anion (O₂^·-) content and production rate significantly decreased, while malondialdehyde (MDA) and hydrogen peroxide (H₂O₂) content and glutathione peroxidase (GPX) and catalase (CAT) activity gradually increased during the aging process. A total of 42,189 unigenes were identified in the whole transcriptome, and 40,446 (95.86%) unigenes were annotated in at least one protein database. A total of 15,376 differentially expressed genes (DEGs) were obtained; KEGG enrichment analysis results revealed that seed aging may be mainly involved in the protein-processing pathways in endoplasmic reticulum, oxidative phosphorylation, and ascorbate and aldarate metabolism. Weighted gene co-expression network analysis (WGCNA) revealed that the dark magenta, orange, and medium purple modules were highly correlated with physiological indicators such as SOD, CAT, and GSH and further identified 40 hub genes such as Rboh, ACO, HSF, and CML as playing important roles in the antioxidant network of M. glyptostroboides seeds. These findings provide a broader perspective for studying the regulatory mechanism of seed aging and a large number of potential target genes for the breeding of other endangered gymnosperms.

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Affiliation(s)

Yongjian Luo Hubei Key Laboratory of Biologic Resources Protection and Utilization, Hubei Minzu University, Enshi 445000, China Guangdong Key Laboratory for Crop Germplasm Resources Preservation and Utilization, Agro-Biological Gene Research Center, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China Research Center for Germplasm Engineering of Characteristic Plant Resources in Enshi Prefecture, Hubei Minzu University, Enshi 445000, China The Plant Germplasm Resources Laboratory, School of Forestry and Horticulture, Hubei Minzu University, Enshi 445000, China
Yixin Zhang Guangdong Key Laboratory for Crop Germplasm Resources Preservation and Utilization, Agro-Biological Gene Research Center, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
Jingyu Le Hubei Key Laboratory of Biologic Resources Protection and Utilization, Hubei Minzu University, Enshi 445000, China Research Center for Germplasm Engineering of Characteristic Plant Resources in Enshi Prefecture, Hubei Minzu University, Enshi 445000, China The Plant Germplasm Resources Laboratory, School of Forestry and Horticulture, Hubei Minzu University, Enshi 445000, China
Qing Li Guangdong Key Laboratory for Crop Germplasm Resources Preservation and Utilization, Agro-Biological Gene Research Center, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
Jiaolin Mou Hubei Key Laboratory of Biologic Resources Protection and Utilization, Hubei Minzu University, Enshi 445000, China Research Center for Germplasm Engineering of Characteristic Plant Resources in Enshi Prefecture, Hubei Minzu University, Enshi 445000, China The Plant Germplasm Resources Laboratory, School of Forestry and Horticulture, Hubei Minzu University, Enshi 445000, China
Shiming Deng Hubei Key Laboratory of Biologic Resources Protection and Utilization, Hubei Minzu University, Enshi 445000, China Research Center for Germplasm Engineering of Characteristic Plant Resources in Enshi Prefecture, Hubei Minzu University, Enshi 445000, China The Plant Germplasm Resources Laboratory, School of Forestry and Horticulture, Hubei Minzu University, Enshi 445000, China
Jitao Li Hubei Key Laboratory of Biologic Resources Protection and Utilization, Hubei Minzu University, Enshi 445000, China Research Center for Germplasm Engineering of Characteristic Plant Resources in Enshi Prefecture, Hubei Minzu University, Enshi 445000, China The Plant Germplasm Resources Laboratory, School of Forestry and Horticulture, Hubei Minzu University, Enshi 445000, China
Ru Wang Hubei Key Laboratory of Biologic Resources Protection and Utilization, Hubei Minzu University, Enshi 445000, China Research Center for Germplasm Engineering of Characteristic Plant Resources in Enshi Prefecture, Hubei Minzu University, Enshi 445000, China The Plant Germplasm Resources Laboratory, School of Forestry and Horticulture, Hubei Minzu University, Enshi 445000, China
Zhijun Deng Hubei Key Laboratory of Biologic Resources Protection and Utilization, Hubei Minzu University, Enshi 445000, China Research Center for Germplasm Engineering of Characteristic Plant Resources in Enshi Prefecture, Hubei Minzu University, Enshi 445000, China The Plant Germplasm Resources Laboratory, School of Forestry and Horticulture, Hubei Minzu University, Enshi 445000, China
Jun Liu Guangdong Key Laboratory for Crop Germplasm Resources Preservation and Utilization, Agro-Biological Gene Research Center, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China

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Singh KP, Kumari P, Yadava DK. Development of de-novo transcriptome assembly and SSRs in allohexaploid Brassica with functional annotations and identification of heat-shock proteins for thermotolerance. Front Genet 2022;13:958217. [PMID: 36186472 PMCID: PMC9524822 DOI: 10.3389/fgene.2022.958217] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2022] [Accepted: 08/23/2022] [Indexed: 11/20/2022] Open

Johnston C, García Navarrete LT, Ortiz E, Romsdahl TB, Guzha A, Chapman KD, Grotewold E, Alonso AP. Effective Mechanisms for Improving Seed Oil Production in Pennycress (Thlaspi arvense L.) Highlighted by Integration of Comparative Metabolomics and Transcriptomics. FRONTIERS IN PLANT SCIENCE 2022;13:943585. [PMID: 35909773 PMCID: PMC9330397 DOI: 10.3389/fpls.2022.943585] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/13/2022] [Accepted: 06/10/2022] [Indexed: 06/15/2023]

Abstract

Pennycress is a potentially lucrative biofuel crop due to its high content of long-chain unsaturated fatty acids, and because it uses non-conventional pathways to achieve efficient oil production. However, metabolic engineering is required to improve pennycress oilseed content and make it an economically viable source of aviation fuel. Research is warranted to determine if further upregulation of these non-conventional pathways could improve oil production within the species even more, which would indicate these processes serve as promising metabolic engineering targets and could provide the improvement necessary for economic feasibility of this crop. To test this hypothesis, we performed a comparative biomass, metabolomic, and transcriptomic analyses between a high oil accession (HO) and low oil accession (LO) of pennycress to assess potential factors required to optimize oil content. An evident reduction in glycolysis intermediates, improved oxidative pentose phosphate pathway activity, malate accumulation in the tricarboxylic acid cycle, and an anaplerotic pathway upregulation were noted in the HO genotype. Additionally, higher levels of threonine aldolase transcripts imply a pyruvate bypass mechanism for acetyl-CoA production. Nucleotide sugar and ascorbate accumulation also were evident in HO, suggesting differential fate of associated carbon between the two genotypes. An altered transcriptome related to lipid droplet (LD) biosynthesis and stability suggests a contribution to a more tightly-packed LD arrangement in HO cotyledons. In addition to the importance of central carbon metabolism augmentation, alternative routes of carbon entry into fatty acid synthesis and modification, as well as transcriptionally modified changes in LD regulation, are key aspects of metabolism and storage associated with economically favorable phenotypes of the species.

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Qu G, Gao Y, Wang X, Fu W, Sun Y, Gao X, Wang W, Hao C, Feng H, Wang Y. Fine mapping and analysis of candidate genes for qFT7.1, a major quantitative trait locus controlling flowering time in Brassica rapa L. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2022;135:2233-2246. [PMID: 35532733 DOI: 10.1007/s00122-022-04108-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/23/2021] [Accepted: 04/13/2022] [Indexed: 06/14/2023]

Affiliation(s)

Gaoyang Qu College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenhe District, Shenyang, 110866, People's Republic of China Key Laboratory of Protected Horticulture, Ministry of Education, Shenyang Agricultural University, Shenyang, 110866, People's Republic of China
Yue Gao College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenhe District, Shenyang, 110866, People's Republic of China Key Laboratory of Protected Horticulture, Ministry of Education, Shenyang Agricultural University, Shenyang, 110866, People's Republic of China
Xian Wang College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenhe District, Shenyang, 110866, People's Republic of China Key Laboratory of Protected Horticulture, Ministry of Education, Shenyang Agricultural University, Shenyang, 110866, People's Republic of China
Wei Fu College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenhe District, Shenyang, 110866, People's Republic of China Key Laboratory of Protected Horticulture, Ministry of Education, Shenyang Agricultural University, Shenyang, 110866, People's Republic of China
Yunxia Sun College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenhe District, Shenyang, 110866, People's Republic of China Key Laboratory of Protected Horticulture, Ministry of Education, Shenyang Agricultural University, Shenyang, 110866, People's Republic of China
Xu Gao College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenhe District, Shenyang, 110866, People's Republic of China Key Laboratory of Protected Horticulture, Ministry of Education, Shenyang Agricultural University, Shenyang, 110866, People's Republic of China
Wei Wang College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenhe District, Shenyang, 110866, People's Republic of China Key Laboratory of Protected Horticulture, Ministry of Education, Shenyang Agricultural University, Shenyang, 110866, People's Republic of China
Chunming Hao College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenhe District, Shenyang, 110866, People's Republic of China Key Laboratory of Protected Horticulture, Ministry of Education, Shenyang Agricultural University, Shenyang, 110866, People's Republic of China
Hui Feng College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenhe District, Shenyang, 110866, People's Republic of China Key Laboratory of Protected Horticulture, Ministry of Education, Shenyang Agricultural University, Shenyang, 110866, People's Republic of China
Yugang Wang College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenhe District, Shenyang, 110866, People's Republic of China. Key Laboratory of Protected Horticulture, Ministry of Education, Shenyang Agricultural University, Shenyang, 110866, People's Republic of China.

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Zhou S, Huang K, Zhou Y, Hu Y, Xiao Y, Chen T, Yin M, Liu Y, Xu M, Jiang X. Degradome sequencing reveals an integrative miRNA-mediated gene interaction network regulating rice seed vigor. BMC PLANT BIOLOGY 2022;22:269. [PMID: 35650544 PMCID: PMC9158300 DOI: 10.1186/s12870-022-03645-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/30/2022] [Accepted: 05/11/2022] [Indexed: 05/14/2023]

Seed germination and vigor: ensuring crop sustainability in a changing climate. Heredity (Edinb) 2022;128:450-459. [PMID: 35013549 DOI: 10.1038/s41437-022-00497-2] [Citation(s) in RCA: 101] [Impact Index Per Article: 33.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2021] [Revised: 12/29/2021] [Accepted: 01/02/2022] [Indexed: 11/08/2022] Open

Zhu X, Weng Q, Bush D, Zhou C, Zhao H, Wang P, Li F. High-density genetic linkage mapping reveals low stability of QTLs across environments for economic traits in Eucalyptus. FRONTIERS IN PLANT SCIENCE 2022;13:1099705. [PMID: 37082511 PMCID: PMC10112524 DOI: 10.3389/fpls.2022.1099705] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/16/2022] [Accepted: 12/28/2022] [Indexed: 05/03/2023]

Abstract

Introduction

Eucalyptus urophylla, E. tereticornis and their hybrids are the most important commercial forest tree species in South China where they are grown for pulpwood and solid wood production. Construction of a fine-scale genetic linkage map and detecting quantitative trait loci (QTL) for economically important traits linked to these end-uses will facilitate identification of the main candidate genes and elucidate the regulatory mechanisms.

Method

A high-density consensus map (a total of 2754 SNPs with 1359.18 cM) was constructed using genotyping by sequencing (GBS) on clonal progenies of E. urophylla × tereticornis hybrids. QTL mapping of growth and wood property traits were conducted in three common garden experiments, resulting in a total of 108 QTLs. A total of 1052 candidate genes were screened by the efficient combination of QTL mapping and transcriptome analysis.

Results

Only ten QTLs were found to be stable across two environments, and only one (qSG10Stable mapped on chromosome 10, and associated with lignin syringyl-to-guaiacyl ratio) was stable across all three environments. Compared to other QTLs, qSG10Stable explained a very high level of phenotypic variation (18.4-23.6%), perhaps suggesting that QTLs with strong effects may be more stably inherited across multiple environments. Screened candidate genes were associated with some transcription factor families, such as TALE, which play an important role in the secondary growth of plant cell walls and the regulation of wood formation.

Discussion

While QTLs such as qSG10Stable, found to be stable across three sites, appear to be comparatively uncommon, their identification is likely to be a key to practical QTL-based breeding. Further research involving clonally-replicated populations, deployed across multiple target planting sites, will be required to further elucidate QTL-by-environment interactions.

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Wang L, Wang R, Lei W, Wu J, Li C, Shi H, Meng L, Yuan F, Zhou Q, Cui C. Transcriptome analysis reveals gene responses to herbicide, tribenuron methyl, in Brassica napus L. during seed germination. BMC Genomics 2021;22:299. [PMID: 33892633 PMCID: PMC8067372 DOI: 10.1186/s12864-021-07614-1] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2020] [Accepted: 04/14/2021] [Indexed: 11/25/2022] Open

Abstract

Background

Tribenuron methyl (TBM) is an herbicide that inhibits sulfonylurea acetolactate synthase (ALS) and is one of the most widely used broad-leaved herbicides for crop production. However, soil residues or drifting of the herbicide spray might affect the germination and growth of rapeseed, Brassica napus, so it is imperative to understand the response mechanism of rape to TBM during germination. The aim of this study was to use transcriptome analysis to reveal the gene responses in herbicide-tolerant rapeseed to TBM stress during seed germination.

Results

2414, 2286, and 1068 differentially expressed genes (DEGs) were identified in TBM-treated resistant vs sensitive lines, treated vs. control sensitive lines, treated vs. control resistant lines, respectively. GO analysis showed that most DEGs were annotated to the oxidation-reduction pathways and catalytic activity. KEGG enrichment was mainly involved in plant-pathogen interactions, α-linolenic acid metabolism, glucosinolate biosynthesis, and phenylpropanoid biosynthesis. Based on GO and KEGG enrichment, a total of 137 target genes were identified, including genes involved in biotransferase activity, response to antioxidant stress and lipid metabolism. Biotransferase genes, CYP450, ABC and GST, detoxify herbicide molecules through physical or biochemical processes. Antioxidant genes, RBOH, WRKY, CDPK, MAPK, CAT, and POD regulate plant tolerance by transmitting ROS signals and triggering antioxidant enzyme expression. Lipid-related genes and hormone-related genes were also found, such as LOX3, ADH1, JAZ6, BIN2 and ERF, and they also played an important role in herbicide resistance.

Conclusions

This study provides insights for selecting TBM-tolerant rapeseed germplasm and exploring the molecular mechanism of TBM tolerance during germination.

Supplementary Information

The online version contains supplementary material available at 10.1186/s12864-021-07614-1.

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Huang L, Li M, Cao D, Yang P. Genetic dissection of rhizome yield-related traits in Nelumbo nucifera through genetic linkage map construction and QTL mapping. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2021;160:155-165. [PMID: 33497846 DOI: 10.1016/j.plaphy.2021.01.020] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/04/2020] [Accepted: 01/15/2021] [Indexed: 06/12/2023]

Molecular and environmental factors regulating seed longevity. Biochem J 2020;477:305-323. [PMID: 31967650 DOI: 10.1042/bcj20190165] [Citation(s) in RCA: 57] [Impact Index Per Article: 11.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2019] [Revised: 12/20/2019] [Accepted: 01/03/2020] [Indexed: 12/18/2022]

Chandler JO, Haas FB, Khan S, Bowden L, Ignatz M, Enfissi EMA, Gawthrop F, Griffiths A, Fraser PD, Rensing SA, Leubner-Metzger G. Rocket Science: The Effect of Spaceflight on Germination Physiology, Ageing, and Transcriptome of Eruca sativa Seeds. Life (Basel) 2020;10:E49. [PMID: 32344775 PMCID: PMC7235897 DOI: 10.3390/life10040049] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2020] [Revised: 04/19/2020] [Accepted: 04/20/2020] [Indexed: 02/07/2023] Open

Lost in Translation: Physiological Roles of Stored mRNAs in Seed Germination. PLANTS 2020;9:plants9030347. [PMID: 32164149 PMCID: PMC7154877 DOI: 10.3390/plants9030347] [Citation(s) in RCA: 34] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/14/2020] [Revised: 03/04/2020] [Accepted: 03/04/2020] [Indexed: 02/07/2023]