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Sharif R, Zhu Y, Huang Y, Sohail H, Li S, Chen X, Qi X. microRNA regulates cytokinin induced parthenocarpy in cucumber (Cucumis sativus L.). PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2024; 212:108681. [PMID: 38776825 DOI: 10.1016/j.plaphy.2024.108681] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/27/2023] [Revised: 03/30/2024] [Accepted: 04/29/2024] [Indexed: 05/25/2024]
Abstract
Parthenocarpy is one of the most important agronomic traits for fruit yield in cucumbers. However, the precise gene regulation and the posttranscriptional mechanism are elusive. In the presented study, one parthenocarpic line DDX and non-parthenocarpic line ZK were applied to identify the microRNAs (miRNAs) involved in parthenocarpic fruit formation. The differential expressed miRNAs among parthenocarpic fruit of forchlorfenuron (CPPU) treated ZK (ZK-CPPU), pollinated ZK (ZK-P), non-pollinated DDX (DDX-NP) were compared with the non-parthenocarpic fruits of non-pollinated ZK (ZK-NP). It indicated 98 miRNAs exhibited differential expression were identified. Notably, a significant proportion of these miRNAs were enriched in the signal transduction pathway of plant hormones, as identified by the KEGG pathway analysis. qRT-PCR validation indicated that CsmiR156 family was upregulated in the ZK-NP while downregulated in ZK-CPPU, ZK-P, and DDX-NP at 1 day after anthesis. Meanwhile, the opposite trend was observed for CsmiR164a. In ZK-CPPU, ZK-P, and DDX-NP, CsmiRNA156 genes (CsSPL16 and CsARR9-like) were upregulated while CsmiRNA164a genes (CsNAC6, CsCUC1, and CsNAC100) were downregulated. The GUS and dual luciferase assay validated that CsmiR156a inhibited while CsmiR164a induced their target genes' transcription. This study presents novel insights into the involvement of CsmiR156a and CsmiR164a in the CK-mediated posttranscriptional regulation of cucumber parthenocarpy, which will aid future breeding programs.
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Affiliation(s)
- Rahat Sharif
- Department of Horticulture, School of Horticulture and Landscape Architecture, Yangzhou University, 48 Wenhui East Road, Yangzhou, Jiangsu, 225009, PR China
| | - Yamei Zhu
- Department of Horticulture, School of Horticulture and Landscape Architecture, Yangzhou University, 48 Wenhui East Road, Yangzhou, Jiangsu, 225009, PR China
| | - Yaoyue Huang
- Department of Horticulture, School of Horticulture and Landscape Architecture, Yangzhou University, 48 Wenhui East Road, Yangzhou, Jiangsu, 225009, PR China
| | - Hamza Sohail
- Department of Horticulture, School of Horticulture and Landscape Architecture, Yangzhou University, 48 Wenhui East Road, Yangzhou, Jiangsu, 225009, PR China
| | - Su Li
- Department of Horticulture, School of Horticulture and Landscape Architecture, Yangzhou University, 48 Wenhui East Road, Yangzhou, Jiangsu, 225009, PR China
| | - Xuehao Chen
- Department of Horticulture, School of Horticulture and Landscape Architecture, Yangzhou University, 48 Wenhui East Road, Yangzhou, Jiangsu, 225009, PR China.
| | - Xiaohua Qi
- Department of Horticulture, School of Horticulture and Landscape Architecture, Yangzhou University, 48 Wenhui East Road, Yangzhou, Jiangsu, 225009, PR China.
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Gong G, Jia H, Tang Y, Pei H, Zhai L, Huang J. Genetic analysis and QTL mapping for pericarp thickness in maize (Zea mays L.). BMC PLANT BIOLOGY 2024; 24:338. [PMID: 38664642 PMCID: PMC11044598 DOI: 10.1186/s12870-024-05052-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/23/2024] [Accepted: 04/19/2024] [Indexed: 04/29/2024]
Abstract
Proper pericarp thickness protects the maize kernel against pests and diseases, moreover, thinner pericarp improves the eating quality in fresh corn. In this study, we aimed to investigate the dynamic changes in maize pericarp during kernel development and identified the major quantitative trait loci (QTLs) for maize pericarp thickness. It was observed that maize pericarp thickness first increased and then decreased. During the growth and formation stages, the pericarp thickness gradually increased and reached the maximum, after which it gradually decreased and reached the minimum during maturity. To identify the QTLs for pericarp thickness, a BC4F4 population was constructed using maize inbred lines B73 (recurrent parent with thick pericarp) and Baimaya (donor parent with thin pericarp). In addition, a high-density genetic map was constructed using maize 10 K SNP microarray. A total of 17 QTLs related to pericarp thickness were identified in combination with the phenotypic data. The results revealed that the heritability of the thickness of upper germinal side of pericarp (UG) was 0.63. The major QTL controlling UG was qPT1-1, which was located on chromosome 1 (212,215,145-212,948,882). The heritability of the thickness of upper abgerminal side of pericarp (UA) was 0.70. The major QTL controlling UA was qPT2-1, which was located on chromosome 2 (2,550,197-14,732,993). In addition, a combination of functional annotation, DNA sequencing analysis and quantitative real-time PCR (qPCR) screened two candidate genes, Zm00001d001964 and Zm00001d002283, that could potentially control maize pericarp thickness. This study provides valuable insights into the improvement of maize pericarp thickness during breeding.
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Affiliation(s)
- Guantong Gong
- Guangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou, 510642, China
| | - Haitao Jia
- Hubei Key Laboratory of Food Crop Germplasm and Genetic Improvement, Food Crops Institute, Hubei Academy of Agricultural Sciences, Wuhan, 430064, China
| | - Yunqi Tang
- Guangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou, 510642, China
| | - Hu Pei
- Guangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou, 510642, China
| | - Lihong Zhai
- Basic School of Medicine, Hubei University of Arts and Science, Xiangyang, 441053, China.
| | - Jun Huang
- Guangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou, 510642, China.
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Xia W, Chen C, Jin S, Chang H, Ding X, Fan Q, Zhang Z, Hua B, Miao M, Liu J. Multi-Omics Analysis Reveals the Distinct Features of Metabolism Pathways Supporting the Fruit Size and Color Variation of Giant Pumpkin. Int J Mol Sci 2024; 25:3864. [PMID: 38612673 PMCID: PMC11012166 DOI: 10.3390/ijms25073864] [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: 02/29/2024] [Revised: 03/25/2024] [Accepted: 03/26/2024] [Indexed: 04/14/2024] Open
Abstract
Pumpkin (Cucurbita maxima) is an important vegetable crop of the Cucurbitaceae plant family. The fruits of pumpkin are often used as directly edible food or raw material for a number of processed foods. In nature, mature pumpkin fruits differ in size, shape, and color. The Atlantic Giant (AG) cultivar has the world's largest fruits and is described as the giant pumpkin. AG is well-known for its large and bright-colored fruits with high ornamental and economic value. At present, there are insufficient studies that have focused on the formation factors of the AG cultivar. To address these knowledge gaps, we performed comparative transcriptome, proteome, and metabolome analysis of fruits from the AG cultivar and a pumpkin with relatively small fruit (Hubbard). The results indicate that up-regulation of gene-encoded expansins contributed to fruit cell expansion, and the increased presence of photoassimilates (stachyose and D-glucose) and jasmonic acid (JA) accumulation worked together in terms of the formation of large fruit in the AG cultivar. Notably, perhaps due to the rapid transport of photoassimilates, abundant stachyose that was not converted into glucose in time was detected in giant pumpkin fruits, implying that a unique mode of assimilate unloading is in existence in the AG cultivar. The potential molecular regulatory network of photoassimilate metabolism closely related to pumpkin fruit expansion was also investigated, finding that three MYB transcription factors, namely CmaCh02G015900, CmaCh01G018100, and CmaCh06G011110, may be involved in metabolic regulation. In addition, neoxanthin (a type of carotenoid) exhibited decreased accumulation that was attributed to the down-regulation of carotenoid biosynthesis genes in AG fruits, which may lead to pigmentation differences between the two pumpkin cultivars. Our current work will provide new insights into the potential formation factors of giant pumpkins for further systematic elucidation.
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Affiliation(s)
- Wenhao Xia
- College of Horticulture and Landscape Architecture, Yangzhou University, Yangzhou 225009, China (S.J.); (H.C.); (Q.F.); (B.H.); (M.M.)
| | - Chen Chen
- College of Horticulture and Landscape Architecture, Yangzhou University, Yangzhou 225009, China (S.J.); (H.C.); (Q.F.); (B.H.); (M.M.)
| | - Siying Jin
- College of Horticulture and Landscape Architecture, Yangzhou University, Yangzhou 225009, China (S.J.); (H.C.); (Q.F.); (B.H.); (M.M.)
| | - Huimin Chang
- College of Horticulture and Landscape Architecture, Yangzhou University, Yangzhou 225009, China (S.J.); (H.C.); (Q.F.); (B.H.); (M.M.)
| | - Xianjun Ding
- College of Horticulture and Landscape Architecture, Yangzhou University, Yangzhou 225009, China (S.J.); (H.C.); (Q.F.); (B.H.); (M.M.)
| | - Qinyi Fan
- College of Horticulture and Landscape Architecture, Yangzhou University, Yangzhou 225009, China (S.J.); (H.C.); (Q.F.); (B.H.); (M.M.)
| | - Zhiping Zhang
- College of Horticulture and Landscape Architecture, Yangzhou University, Yangzhou 225009, China (S.J.); (H.C.); (Q.F.); (B.H.); (M.M.)
| | - Bing Hua
- College of Horticulture and Landscape Architecture, Yangzhou University, Yangzhou 225009, China (S.J.); (H.C.); (Q.F.); (B.H.); (M.M.)
| | - Minmin Miao
- College of Horticulture and Landscape Architecture, Yangzhou University, Yangzhou 225009, China (S.J.); (H.C.); (Q.F.); (B.H.); (M.M.)
- Joint International Research Laboratory of Agriculture and Agri-Product Safety of Ministry of Education of China, Yangzhou University, Yangzhou 225009, China
- Key Laboratory of Plant Functional Genomics of the Ministry of Education, Yangzhou University, Yangzhou 225009, China
| | - Jiexia Liu
- College of Horticulture and Landscape Architecture, Yangzhou University, Yangzhou 225009, China (S.J.); (H.C.); (Q.F.); (B.H.); (M.M.)
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Baranov D, Timerbaev V. Recent Advances in Studying the Regulation of Fruit Ripening in Tomato Using Genetic Engineering Approaches. Int J Mol Sci 2024; 25:760. [PMID: 38255834 PMCID: PMC10815249 DOI: 10.3390/ijms25020760] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2023] [Revised: 12/28/2023] [Accepted: 01/02/2024] [Indexed: 01/24/2024] Open
Abstract
Tomato (Solanum lycopersicum L.) is one of the most commercially essential vegetable crops cultivated worldwide. In addition to the nutritional value, tomato is an excellent model for studying climacteric fruits' ripening processes. Despite this, the available natural pool of genes that allows expanding phenotypic diversity is limited, and the difficulties of crossing using classical selection methods when stacking traits increase proportionally with each additional feature. Modern methods of the genetic engineering of tomatoes have extensive potential applications, such as enhancing the expression of existing gene(s), integrating artificial and heterologous gene(s), pointing changes in target gene sequences while keeping allelic combinations characteristic of successful commercial varieties, and many others. However, it is necessary to understand the fundamental principles of the gene molecular regulation involved in tomato fruit ripening for its successful use in creating new varieties. Although the candidate genes mediate ripening have been identified, a complete picture of their relationship has yet to be formed. This review summarizes the latest (2017-2023) achievements related to studying the ripening processes of tomato fruits. This work attempts to systematize the results of various research articles and display the interaction pattern of genes regulating the process of tomato fruit ripening.
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Affiliation(s)
- Denis Baranov
- Laboratory of Expression Systems and Plant Genome Modification, Branch of Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Science, 142290 Pushchino, Russia;
- Laboratory of Plant Genetic Engineering, All-Russia Research Institute of Agricultural Biotechnology, 127550 Moscow, Russia
| | - Vadim Timerbaev
- Laboratory of Expression Systems and Plant Genome Modification, Branch of Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Science, 142290 Pushchino, Russia;
- Laboratory of Plant Genetic Engineering, All-Russia Research Institute of Agricultural Biotechnology, 127550 Moscow, Russia
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Ji Y, Wang A. Recent advances in epigenetic triggering of climacteric fruit ripening. PLANT PHYSIOLOGY 2023; 192:1711-1717. [PMID: 37002826 PMCID: PMC10315304 DOI: 10.1093/plphys/kiad206] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/04/2023] [Revised: 03/03/2023] [Accepted: 03/18/2023] [Indexed: 06/19/2023]
Abstract
During ripening, fleshy fruits undergo irreversible changes in color, texture, sugar content, aroma, and flavor to appeal to seed-dispersal vectors. The onset of climacteric fruit ripening is accompanied by an ethylene burst. Understanding the factors triggering this ethylene burst is important for manipulating climacteric fruit ripening. Here, we review the current understanding and recent insights into the possible factors triggering climacteric fruit ripening: DNA methylation and histone modification, including methylation and acetylation. Understanding the initiation factors of fruit ripening is important for exploring and accurately regulating the mechanisms of fruit ripening. Lastly, we discuss the potential mechanisms responsible for climacteric fruit ripening.
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Affiliation(s)
- Yinglin Ji
- Key Laboratory of Fruit Postharvest Biology (Liaoning Province), Key Laboratory of Protected Horticulture (Ministry of Education), National and Local Joint Engineering Research Center of Northern Horticultural Facilities Design and Application Technology (Liaoning), College of Horticulture, Shenyang Agricultural University, Shenyang 110866, China
| | - Aide Wang
- Key Laboratory of Fruit Postharvest Biology (Liaoning Province), Key Laboratory of Protected Horticulture (Ministry of Education), National and Local Joint Engineering Research Center of Northern Horticultural Facilities Design and Application Technology (Liaoning), College of Horticulture, Shenyang Agricultural University, Shenyang 110866, China
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Fresno DH, Munné-Bosch S. Organ-specific responses during acclimation of mycorrhizal and non-mycorrhizal tomato plants to a mild water stress reveal differential local and systemic hormonal and nutritional adjustments. PLANTA 2023; 258:32. [PMID: 37368074 PMCID: PMC10300162 DOI: 10.1007/s00425-023-04192-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/12/2023] [Accepted: 06/20/2023] [Indexed: 06/28/2023]
Abstract
MAIN CONCLUSION Tomato plant acclimation to a mild water stress implied tissue-specific hormonal and nutrient adjustments, being the root one of the main modulators of this response. Phytohormones are key regulators of plant acclimation to water stress. However, it is not yet clear if these hormonal responses follow specific patterns depending on the plant tissue. In this study, we evaluated the organ-specific physiological and hormonal responses to a 14 day-long mild water stress in tomato plants (Solanum lycopersicum cv. Moneymaker) in the presence or absence of the arbuscular mycorrhizal fungus Rhizoglomus irregulare, a frequently used microorganism in agriculture. Several physiological, production, and nutritional parameters were evaluated throughout the experiments. Additionally, endogenous hormone levels in roots, leaves, and fruits at different developmental stages were quantified by ultrahigh-performance liquid chromatography coupled to tandem mass spectrometry (UHPLC-MS/MS). Water deficit drastically reduced shoot growth, while it did not affect fruit production. In contrast, fruit production was enhanced by mycorrhization regardless of the water treatment. The main tissue affected by water stress was the root system, where huge rearrangements in different nutrients and stress-related and growth hormones took place. Abscisic acid content increased in every tissue and fruit developmental stage, suggesting a systemic response to drought. On the other hand, jasmonate and cytokinin levels were generally reduced upon water stress, although this response was dependent on the tissue and the hormonal form. Finally, mycorrhization improved plant nutritional status content of certain macro and microelements, specially at the roots and ripe fruits, while it affected jasmonate response in the roots. Altogether, our results suggest a complex response to drought that consists in systemic and local combined hormonal and nutrient responses.
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Affiliation(s)
- David H Fresno
- Department of Evolutionary Biology, Ecology and Environmental Sciences, Faculty of Biology, University of Barcelona, 08028, Barcelona, Spain
- Institute of Nutrition and Food Safety (INSA), Faculty of Biology, University of Barcelona, 08028, Barcelona, Spain
| | - Sergi Munné-Bosch
- Department of Evolutionary Biology, Ecology and Environmental Sciences, Faculty of Biology, University of Barcelona, 08028, Barcelona, Spain.
- Institute of Nutrition and Food Safety (INSA), Faculty of Biology, University of Barcelona, 08028, Barcelona, Spain.
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Li WF, Ma ZH, Guo ZG, Zuo CW, Chu MY, Mao J, Chen BH. Insights on the stem elongation of spur-type bud sport mutant of 'Red Delicious' apple. PLANTA 2023; 257:48. [PMID: 36740622 DOI: 10.1007/s00425-023-04086-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/21/2022] [Accepted: 01/31/2023] [Indexed: 06/18/2023]
Abstract
The decreased capacity of auxin-, CTK-, and BR-mediated cell division and cell enlargement pathways, combined with the enhanced capacity of GA and ETH-, JA-, ABA-, SA-mediated stress-resistant pathways were presumed to be the crucial reasons for the formation of spur-type 'Red Delicious' mutants. Vallee Spur', which exhibit short internodes and compact tree shape, is the fourth generation of the spur-type bud sport mutant of 'Red Delicious'. However, the underlying molecular mechanism of these properties remains unclear. Here, comparative phenotypic, full-length transcriptome and phytohormone analyses were performed between 'Red Delicious' (NSP) and 'Vallee Spur' (SP). The new shoot internode length of NSP was ˃ 1.53-fold higher than that of the SP mutant. Cytological analysis showed that the stem cells of the SP mutant were smaller and more tightly arranged relative to the NSP. By Iso-Seq, a total of 1426 differentially expressed genes (DEGs) were detected, including 808 upregulated and 618 downregulated genes in new shoot apex with 2 leaves of the SP mutant. Gene expressions involved in auxin, cytokinin (CTK), and brassinosteroid (BR) signal transduction were mostly downregulated in the SP mutant, whereas those involved in gibberellin (GA), ethylene (ETH), jasmonate (JA), ABA, and salicylic acid (SA) signal transduction were mostly upregulated. The overall thermogram analysis of hormone levels in the shoot apex carrying two leaves detected by LC-MS/MS absolute quantification showed that the levels of IAA-Asp, IAA, iP7G, OPDA, and 6-deoxyCS were significantly upregulated in the SP mutant, while the remaining 28 hormones were significantly downregulated. It is speculated that the decreased capacity of auxin, CTK, and BR-mediated cell division and cell enlargement pathways is crucial for the formation of the SP mutant. GA and stress-resistant pathways of ETH, JA, ABA, and SA also play vital roles in stem elongation. These results highlight the involvement of phytohormones in the formation of stem elongation occurring in 'Red Delicious' spur-type bud sport mutants and provide information for exploring its biological mechanism.
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Affiliation(s)
- Wen-Fang Li
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, China
| | - Zong-Huan Ma
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, China
| | - Zhi-Gang Guo
- College of Bioengineering and Biotechnology, Tianshui Normal University, Tianshui, 741000, China
| | - Cun-Wu Zuo
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, China
| | - Ming-Yu Chu
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, China
| | - Juan Mao
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, China
| | - Bai-Hong Chen
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, China.
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Chen J, Pan B, Li Z, Xu Y, Cao X, Jia J, Shen H, Sun L. Fruit shape loci sun, ovate, fs8.1 and their interactions affect seed size and shape in tomato. FRONTIERS IN PLANT SCIENCE 2023; 13:1091639. [PMID: 36714752 PMCID: PMC9879704 DOI: 10.3389/fpls.2022.1091639] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/07/2022] [Accepted: 12/22/2022] [Indexed: 06/18/2023]
Abstract
Seed size and shape are not only critical for plant reproduction and dispersal, but also important agronomic traits. Tomato fruit shape loci sun, ovate and fs8.1 regulate the morphology of fruit, flower, leaf and stem, and recently their functions in seed morphogenesis have also been noticed. However, mechanism underlying seed morphology variation has not been systematically investigated yet. Thus, using the near isogenic lines (NILs) harboring one, two or three of the fruit shape loci, histological, physiological and transcriptional bases of seed morphology change have been studied. sun and ovate showed potential abilities in decreasing seed size, whereas, fs8.1 had a potential ability in increasing this parameter. Interactions between two loci and the interaction among three loci all led to significant decrease of seed size. All the loci significantly down-regulated seed shape index (SSI), except for sun/fs8.1 double NIL, which resulted in the reductions in both seed length and width and finally led to a decreased trend of SSI. Histologically, seed morphological changes were mainly attributed to the cell number variations. Transcriptional and physiological analyses discovered that phytohormone-, cytoskeleton- as well as sugar transportation- and degradation-related genes were involved in the regulation of seed morphology by the fruit shape loci.
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Affiliation(s)
- Jie Chen
- College of Horticulture, China Agricultural University, Beijing, China
- Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing, China
| | - Bingqing Pan
- College of Horticulture, China Agricultural University, Beijing, China
- Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing, China
| | - Zixiong Li
- College of Horticulture, China Agricultural University, Beijing, China
- Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing, China
| | - Yue Xu
- College of Horticulture, China Agricultural University, Beijing, China
- Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing, China
| | - Xiaomeng Cao
- College of Horticulture, China Agricultural University, Beijing, China
- Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing, China
| | - Jingjing Jia
- College of Horticulture, China Agricultural University, Beijing, China
- Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing, China
| | - Huolin Shen
- College of Horticulture, China Agricultural University, Beijing, China
- Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing, China
| | - Liang Sun
- College of Horticulture, China Agricultural University, Beijing, China
- Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing, China
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Yu C, Yao X, Wang K, Huang G, Dong S, Long W. Analysis of the dynamic changes of endogenous hormones for the pericarp and seed kernel of young fruit in Camellia chekiangoleosa Hu. ALL LIFE 2022. [DOI: 10.1080/26895293.2022.2148005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
Affiliation(s)
- Chunlian Yu
- Changshan Country Oil Tea Industry Development Center, Changshan, People’s Republic of China
| | - Xiaohua Yao
- Zhejiang Provincial Key Laboratory of Tree Breeding, Research Institute of Subtropical Forestry, Chinese Academy of Forestry, Hangzhou, People’s Republic of China
| | - Kailiang Wang
- Zhejiang Provincial Key Laboratory of Tree Breeding, Research Institute of Subtropical Forestry, Chinese Academy of Forestry, Hangzhou, People’s Republic of China
| | - Guangyuan Huang
- Changshan Country Oil Tea Industry Development Center, Changshan, People’s Republic of China
| | - Shuang Dong
- Changshan Country Oil Tea Industry Development Center, Changshan, People’s Republic of China
| | - Wei Long
- Zhejiang Provincial Key Laboratory of Tree Breeding, Research Institute of Subtropical Forestry, Chinese Academy of Forestry, Hangzhou, People’s Republic of China
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Holušová K, Čmejlová J, Suran P, Čmejla R, Sedlák J, Zelený L, Bartoš J. High-resolution genome-wide association study of a large Czech collection of sweet cherry ( Prunus avium L.) on fruit maturity and quality traits. HORTICULTURE RESEARCH 2022; 10:uhac233. [PMID: 36643756 PMCID: PMC9832837 DOI: 10.1093/hr/uhac233] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/13/2022] [Accepted: 10/10/2022] [Indexed: 06/17/2023]
Abstract
In sweet cherry (Prunus avium L.), quantitative trait loci have been identified for fruit maturity, colour, firmness, and size to develop markers for marker-assisted selection. However, resolution is usually too low in those analyses to directly target candidate genes, and some associations are missed. In contrast, genome-wide association studies are performed on broad collections of accessions, and assemblies of reference sequences from Tieton and Satonishiki cultivars enable identification of single nucleotide polymorphisms after whole-genome sequencing, providing high marker density. Two hundred and thirty-five sweet cherry accessions were sequenced and phenotyped for harvest time and fruit colour, firmness, and size. Genome-wide association studies were used to identify single nucleotide polymorphisms associated with each trait, which were verified in breeding material consisting of 64 additional accessions. A total of 1 767 106 single nucleotide polymorphisms were identified. At that density, significant single nucleotide polymorphisms could be linked to co-inherited haplotype blocks (median size ~10 kb). Thus, markers were tightly associated with respective phenotypes, and individual allelic combinations of particular single nucleotide polymorphisms provided links to distinct phenotypes. In addition, yellow-fruit accessions were sequenced, and a ~ 90-kb-deletion on chromosome 3 that included five MYB10 transcription factors was associated with the phenotype. Overall, the study confirmed numerous quantitative trait loci from bi-parental populations using high-diversity accession populations, identified novel associations, and genome-wide association studies reduced the size of trait-associated loci from megabases to kilobases and to a few candidate genes per locus. Thus, a framework is provided to develop molecular markers and evaluate and characterize genes underlying important agronomic traits.
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Affiliation(s)
- Kateřina Holušová
- Institute of Experimental Botany of the Czech Academy of Sciences, Centre of the Region Haná for Biotechnological and Agricultural Research, Šlechtitelů 31, Olomouc, 779 00, Czech Republic
| | - Jana Čmejlová
- Research and Breeding Institute of Pomology Holovousy Ltd., Holovousy 129, Holovousy, 508 01, Czech Republic
| | - Pavol Suran
- Research and Breeding Institute of Pomology Holovousy Ltd., Holovousy 129, Holovousy, 508 01, Czech Republic
| | - Radek Čmejla
- Research and Breeding Institute of Pomology Holovousy Ltd., Holovousy 129, Holovousy, 508 01, Czech Republic
| | - Jiří Sedlák
- Research and Breeding Institute of Pomology Holovousy Ltd., Holovousy 129, Holovousy, 508 01, Czech Republic
| | - Lubor Zelený
- Research and Breeding Institute of Pomology Holovousy Ltd., Holovousy 129, Holovousy, 508 01, Czech Republic
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