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Usai G, Fambrini M, Pugliesi C, Simoni S. Exploring the patterns of evolution: Core thoughts and focus on the saltational model. Biosystems 2024; 238:105181. [PMID: 38479653 DOI: 10.1016/j.biosystems.2024.105181] [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: 12/07/2023] [Revised: 02/29/2024] [Accepted: 03/08/2024] [Indexed: 03/18/2024]
Abstract
The Modern Synthesis, a pillar in biological thought, united Darwin's species origin concepts with Mendel's laws of character heredity, providing a comprehensive understanding of evolution within species. Highlighting phenotypic variation and natural selection, it elucidated the environment's role as a selective force, shaping populations over time. This framework integrated additional mechanisms, including genetic drift, random mutations, and gene flow, predicting their cumulative effects on microevolution and the emergence of new species. Beyond the Modern Synthesis, the Extended Evolutionary Synthesis expands perspectives by recognizing the role of developmental plasticity, non-genetic inheritance, and epigenetics. We suggest that these aspects coexist in the plant evolutionary process; in this context, we focus on the saltational model, emphasizing how saltation events, such as dichotomous saltation, chromosomal mutations, epigenetic phenomena, and polyploidy, contribute to rapid evolutionary changes. The saltational model proposes that certain evolutionary changes, such as the rise of new species, may result suddenly from single macromutations rather than from gradual changes in DNA sequences and allele frequencies within a species over time. These events, observed in domesticated and wild higher plants, provide well-defined mechanistic bases, revealing their profound impact on plant diversity and rapid evolutionary events. Notably, next-generation sequencing exposes the likely crucial role of allopolyploidy and autopolyploidy (saltational events) in generating new plant species, each characterized by distinct chromosomal complements. In conclusion, through this review, we offer a thorough exploration of the ongoing dissertation on the saltational model, elucidating its implications for our understanding of plant evolutionary processes and paving the way for continued research in this intriguing field.
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Affiliation(s)
- Gabriele Usai
- Department of Agriculture, Food and Environment (DAFE), University of Pisa, Via del Borghetto 80, 56124, Pisa, Italy
| | - Marco Fambrini
- Department of Agriculture, Food and Environment (DAFE), University of Pisa, Via del Borghetto 80, 56124, Pisa, Italy
| | - Claudio Pugliesi
- Department of Agriculture, Food and Environment (DAFE), University of Pisa, Via del Borghetto 80, 56124, Pisa, Italy.
| | - Samuel Simoni
- Department of Agriculture, Food and Environment (DAFE), University of Pisa, Via del Borghetto 80, 56124, Pisa, Italy
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2
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Wei X, Yuan M, Zheng BQ, Zhou L, Wang Y. Genome-wide identification and characterization of TCP gene family in Dendrobium nobile and their role in perianth development. FRONTIERS IN PLANT SCIENCE 2024; 15:1352119. [PMID: 38375086 PMCID: PMC10875090 DOI: 10.3389/fpls.2024.1352119] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/07/2023] [Accepted: 01/22/2024] [Indexed: 02/21/2024]
Abstract
TCP is a widely distributed, essential plant transcription factor that regulates plant growth and development. An in-depth study of TCP genes in Dendrobium nobile, a crucial parent in genetic breeding and an excellent model material to explore perianth development in Dendrobium, has not been conducted. We identified 23 DnTCP genes unevenly distributed across 19 chromosomes and classified them as Class I PCF (12 members), Class II: CIN (10 members), and CYC/TB1 (1 member) based on the conserved domain and phylogenetic analysis. Most DnTCPs in the same subclade had similar gene and motif structures. Segmental duplication was the predominant duplication event for TCP genes, and no tandem duplication was observed. Seven genes in the CIN subclade had potential miR319 and -159 target sites. Cis-acting element analysis showed that most DnTCP genes contained many developmental stress-, light-, and phytohormone-responsive elements in their promoter regions. Distinct expression patterns were observed among the 23 DnTCP genes, suggesting that these genes have diverse regulatory roles at different stages of perianth development or in different organs. For instance, DnTCP4 and DnTCP18 play a role in early perianth development, and DnTCP5 and DnTCP10 are significantly expressed during late perianth development. DnTCP17, 20, 21, and 22 are the most likely to be involved in perianth and leaf development. DnTCP11 was significantly expressed in the gynandrium. Specially, MADS-specific binding sites were present in most DnTCP genes putative promoters, and two Class I DnTCPs were in the nucleus and interacted with each other or with the MADS-box. The interactions between TCP and the MADS-box have been described for the first time in orchids, which broadens our understanding of the regulatory network of TCP involved in perianth development in orchids.
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Affiliation(s)
| | | | | | | | - Yan Wang
- State Key Laboratory of Tree Genetics and Breeding; Research Institute of Forestry, Chinese Academy of Forestry, Beijing, China
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3
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Zhu Y, Liu Y, Wang W, Li H, Liu C, Dou L, Wei L, Cheng W, Bao M, Yi Q, He Y. Identification and characterization of CYC2-like genes related to floral symmetric development in Tagetes erecta (Asteraceae). Gene 2023; 889:147804. [PMID: 37716585 DOI: 10.1016/j.gene.2023.147804] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2023] [Revised: 09/07/2023] [Accepted: 09/13/2023] [Indexed: 09/18/2023]
Abstract
Marigold (Tagetes erecta) is an annual herbaceous flower belonging to Asteraceae, whose capitulum is composed of bilateral symmetry ray florets on the outer periphery and radial symmetry disk florets on the inside. The flower symmetry evolution from radial symmetry to bilateral symmetry has changed the morphology, inflorescence architecture and function of florets among several lineages in Asteraceae. Several studies have identified that CYC2 genes in TCP transcription factor family are the key genes regulating the flower morphogenesis, such as corolla symmetry and stamen development. Here, seven TeCYC2 genes were cloned and phylogenetically grouped into the CYC2 branch of TCP transcription family. TeCYC2c and TeCYC2d were found to be expressed specifically in ray florets, TeCYC2b was strongly expressed in both ray and disk florets, TeCYC2g was significantly higher expressed in ray florets than in disk florets, while TeCYC2a, TeCYC2e1 and TeCYC2e2 were significantly expressed in disk florets, according to an examination of the expression profile. Among the ectopic expression lines of seven TeCYC2 genes in Arabidopsis thaliana, the flower symmetry of all transgenic lines was changed from radial symmetry to bilateral symmetry, and only the reproductive growth of TeCYC2c lines was affected. In TeCYC2c transgenic Arabidopsis, the pollen sac was difficult to crack, and the filaments were shorter than the pistils, resulting in a significant decrease in the seed setting rate. All TeCYC2 proteins were localized in the nucleus. Eight pairs of interactions between TeCYC2 proteins were validated by Y2H and BiFC assays, indicating the possibility of TeCYC2 proteins forming homodimers or heterodimers to improve functional specificity. Our findings verified the main regulatory role of TeCYC2c on the development of corollas and stamen in marigold, and analyzed the interaction network of the formation mechanism of floral symmetry in two florets, which provided more insights into the expansion of CYC2 genes in the evolution of Asteraceae inflorescence and contributed to elucidate the complex regulatory network, as well as the molecular breeding concerning flower form diversity in marigold.
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Affiliation(s)
- Yu Zhu
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China
| | - Yuhan Liu
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China
| | - Wenjing Wang
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China
| | - Hang Li
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China
| | - Cuicui Liu
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China
| | - Linlin Dou
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China
| | - Ludan Wei
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China
| | - Wenhan Cheng
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China
| | - Manzhu Bao
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China
| | - Qingping Yi
- Hubei Engineering Research Center for Specialty Flowers Biological Breeding, Jingchu University of Technology, Jingmen 448000, Hubei, China.
| | - Yanhong He
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China.
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4
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Strelin MM, Diggle PK, Aizen MA. Flower heterochrony and crop yield. TRENDS IN PLANT SCIENCE 2023; 28:1360-1369. [PMID: 37612211 DOI: 10.1016/j.tplants.2023.07.013] [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: 01/16/2023] [Revised: 06/17/2023] [Accepted: 07/28/2023] [Indexed: 08/25/2023]
Abstract
Crop improvement has focused on enhancing yield, nutrient content, harvestability, and stress resistance using a trait-centered reductionist approach. This has downplayed the fact that plants are developmentally integrated and respond coordinately and predictably to genetic and environmental variation, with potential consequences for food production. Crop yield, including both fruit/seed production and the possibility of generating hybrid crop varieties, is highly dependent on flower morphology and sex, which, in turn, can be profoundly affected by slight shifts in the timing and rate of flower organ development (i.e., flower heterochrony). We argue that understanding the genetic and environmental bases of flower heterochrony and their effect on flower morphology and sex in cultivated plants and in their wild relatives can facilitate crop improvement.
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Affiliation(s)
- Marina M Strelin
- Grupo de Investigación en Ecología de la Polinización, Laboratorio Ecotono, INIBIOMA (CONICET - Universidad Nacional del Comahue), San Carlos de Bariloche, Río Negro, Argentina.
| | - Pamela K Diggle
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT, USA
| | - Marcelo A Aizen
- Grupo de Investigación en Ecología de la Polinización, Laboratorio Ecotono, INIBIOMA (CONICET - Universidad Nacional del Comahue), San Carlos de Bariloche, Río Negro, Argentina
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5
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Li X, Ping A, Qi X, Li M, Hou L. Cloning, expression and functional analysis of the SOC1 homologous gene in pak choi ( Brassica rapa ssp. Chinensis makino). BIOTECHNOL BIOTEC EQ 2022. [DOI: 10.1080/13102818.2022.2134823] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023] Open
Affiliation(s)
- Xuan Li
- Department of Vegetable, College of Horticulture, Shanxi Agricultural University (Shanxi Academy of Agricultural Sciences), Taigu, P.R. China
| | - Amin Ping
- Department of Vegetable, College of Horticulture, Shanxi Agricultural University (Shanxi Academy of Agricultural Sciences), Taigu, P.R. China
| | - Xianhui Qi
- Department of Vegetable, College of Horticulture, Shanxi Agricultural University (Shanxi Academy of Agricultural Sciences), Taigu, P.R. China
| | - Meilan Li
- Department of Vegetable, College of Horticulture, Shanxi Agricultural University (Shanxi Academy of Agricultural Sciences), Taigu, P.R. China
| | - Leiping Hou
- Department of Vegetable, College of Horticulture, Shanxi Agricultural University (Shanxi Academy of Agricultural Sciences), Taigu, P.R. China
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6
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Fan J, Huang J, Pu Y, Niu Y, Zhang M, Dai S, Huang H. Transcriptomic analysis reveals the formation mechanism of anemone-type flower in chrysanthemum. BMC Genomics 2022; 23:846. [PMID: 36544087 PMCID: PMC9773529 DOI: 10.1186/s12864-022-09078-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2022] [Accepted: 12/08/2022] [Indexed: 12/24/2022] Open
Abstract
BACKGROUND The ray and disc florets on the chrysanthemum capitulum are morphologically diverse and have remarkably abundant variant types, resulting in a rich variety of flower types. An anemone shape with pigmented and elongated disk florets is an important trait in flower shape breeding of chrysanthemums. The regulatory mechanism of their anemone-type disc floret formation was not clear, thus limiting the directional breeding of chrysanthemum flower types. In this study, we used morphological observation, transcriptomic analysis, and gene expression to investigate the morphogenetic processes and regulatory mechanisms of anemone-type chrysanthemum. RESULT Scanning electron microscopy (SEM) observation showed that morphological differences between non-anemone-type disc florets and anemone-type disc florets occurred mainly during the petal elongation period. The anemone-type disc florets elongated rapidly in the later stages of development. Longitudinal paraffin section analysis revealed that the anemone-type disc florets were formed by a great number of cells in the middle layer of the petals with vigorous division. We investigated the differentially expressed genes (DEGs) using ray and disc florets of two chrysanthemum cultivars, 082 and 068, for RNA-Seq and their expression patterns of non-anemone-type and anemone-type disc florets. The result suggested that the CYCLOIDEA2 (CYC2s), MADS-box genes, and phytohormone signal-related genes appeared significantly different in both types of disc florets and might have important effects on the formation of anemone-type disc florets. In addition, it is noteworthy that the auxin and jasmonate signaling pathways might play a vital role in developing anemone-type disc florets. CONCLUSIONS Based on our findings, we propose a regulatory network for forming non-anemone-type and anemone-type disc florets. The results of this study lead the way to further clarify the mechanism of the anemone-type chrysanthemum formation and lay the foundation for the directive breeding of chrysanthemum petal types.
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Affiliation(s)
- Jiawei Fan
- grid.66741.320000 0001 1456 856XBeijing Advanced Innovation Center for Tree Breeding By Molecular Design, Beijing Key Laboratory of Ornamental Plants Germplasm Innovation & Molecular Breeding, Beijing Laboratory of Urban and Rural Ecological Environment, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants of Education Ministry, School of Landscape Architecture, National Engineering Research Center for Floriculture, Beijing Forestry University, Beijing, 100083 China
| | - Jialu Huang
- grid.66741.320000 0001 1456 856XBeijing Advanced Innovation Center for Tree Breeding By Molecular Design, Beijing Key Laboratory of Ornamental Plants Germplasm Innovation & Molecular Breeding, Beijing Laboratory of Urban and Rural Ecological Environment, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants of Education Ministry, School of Landscape Architecture, National Engineering Research Center for Floriculture, Beijing Forestry University, Beijing, 100083 China
| | - Ya Pu
- grid.66741.320000 0001 1456 856XBeijing Advanced Innovation Center for Tree Breeding By Molecular Design, Beijing Key Laboratory of Ornamental Plants Germplasm Innovation & Molecular Breeding, Beijing Laboratory of Urban and Rural Ecological Environment, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants of Education Ministry, School of Landscape Architecture, National Engineering Research Center for Floriculture, Beijing Forestry University, Beijing, 100083 China
| | - Yajing Niu
- National Bot Garden, Beijing, 100093 China
| | | | - Silan Dai
- grid.66741.320000 0001 1456 856XBeijing Advanced Innovation Center for Tree Breeding By Molecular Design, Beijing Key Laboratory of Ornamental Plants Germplasm Innovation & Molecular Breeding, Beijing Laboratory of Urban and Rural Ecological Environment, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants of Education Ministry, School of Landscape Architecture, National Engineering Research Center for Floriculture, Beijing Forestry University, Beijing, 100083 China
| | - He Huang
- grid.66741.320000 0001 1456 856XBeijing Advanced Innovation Center for Tree Breeding By Molecular Design, Beijing Key Laboratory of Ornamental Plants Germplasm Innovation & Molecular Breeding, Beijing Laboratory of Urban and Rural Ecological Environment, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants of Education Ministry, School of Landscape Architecture, National Engineering Research Center for Floriculture, Beijing Forestry University, Beijing, 100083 China
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7
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Feng T, Wang L, Li L, Liu Y, Chong K, Theißen G, Meng Z. OsMADS14 and NF-YB1 cooperate in the direct activation of OsAGPL2 and Waxy during starch synthesis in rice endosperm. THE NEW PHYTOLOGIST 2022; 234:77-92. [PMID: 35067957 DOI: 10.1111/nph.17990] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/22/2021] [Accepted: 01/03/2022] [Indexed: 05/02/2023]
Abstract
Starch synthesis makes a dramatic contribution to the yield and nutritional value of cereal crops. Although several starch synthesis enzymes and related regulators have been reported, the underlying regulatory mechanisms of starch synthesis remain largely unknown. OsMADS14 is a FRUITFULL (FUL)-like MADS-box gene in rice (Oryza sativa). Here we show that two null mutations of OsMADS14 result in a shrunken and chalky grain phenotype. It is caused by obviously defective compound starch granules and a significantly reduced content of both total starch and amylose in the endosperm. Transcriptomic profiling analyses revealed that the loss-of-function of OsMADS14 leads to significantly downregulated expression of many core starch synthesis genes, including OsAGPL2 and Waxy. Both in vitro and in vivo assays demonstrate that the OsMADS14 protein directly binds to stretches of DNA with a CArG-box consensus in the putative regulatory regions of OsAGPL2 and Waxy. Protein-protein interaction experiments also suggest that OsMADS14 interacts with nuclear factor NF-YB1 to promote the transcription of OsAGPL2 and Waxy. Our study thus demonstrates that OsMADS14 plays an essential role in the synthesis of storage starch and provides novel insights into the underlying molecular mechanism that may be used to improve rice cultivars by molecular breeding.
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Affiliation(s)
- Tingting Feng
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Lili Wang
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Laiyun Li
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Yuan Liu
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Kang Chong
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Günter Theißen
- Matthias Schleiden Institute/Genetics, Friedrich Schiller University Jena, Jena, D-07743, Germany
| | - Zheng Meng
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
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8
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Zhan P, Ma S, Xiao Z, Li F, Wei X, Lin S, Wang X, Ji Z, Fu Y, Pan J, Zhou M, Liu Y, Chang Z, Li L, Bu S, Liu Z, Zhu H, Liu G, Zhang G, Wang S. Natural variations in grain length 10 (GL10) regulate rice grain size. J Genet Genomics 2022; 49:405-413. [DOI: 10.1016/j.jgg.2022.01.008] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2021] [Revised: 01/23/2022] [Accepted: 01/24/2022] [Indexed: 10/19/2022]
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9
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Strelin MM, Zattara EE, Ullrich K, Schallenberg-Rüdinger M, Rensing S. Delayed differentiation of epidermal cells walls can underlie pedomorphosis in plants: the case of pedomorphic petals in the hummingbird-pollinated Caiophora hibiscifolia (Loasaceae, subfam. Loasoideae) species. EvoDevo 2022; 13:1. [PMID: 34980236 PMCID: PMC8725396 DOI: 10.1186/s13227-021-00186-x] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2021] [Accepted: 12/12/2021] [Indexed: 01/11/2023] Open
Abstract
Background Understanding the relationship between macroevolutionary diversity and variation in organism development is an important goal of evolutionary biology. Variation in the morphology of several plant and animal lineages is attributed to pedomorphosis, a case of heterochrony, where an ancestral juvenile shape is retained in an adult descendant. Pedomorphosis facilitated morphological adaptation in different plant lineages, but its cellular and molecular basis needs further exploration. Plant development differs from animal development in that cells are enclosed by cell walls and do not migrate. Moreover, in many plant lineages, the differentiated epidermis of leaves, and leaf-derived structures, such as petals, limits organ growth. We, therefore, proposed that pedomorphosis in leaves, and in leaf-derived structures, results from delayed differentiation of epidermal cells with respect to reproductive maturity. This idea was explored for petal evolution, given the importance of corolla morphology for angiosperm reproductive success. Results By comparing cell morphology and transcriptional profiles between 5 mm flower buds and mature flowers of an entomophile and an ornitophile Loasoideae species (a lineage that experienced transitions from bee- to hummingbird-pollination), we show that evolution of pedomorphic petals of the ornithophile species likely involved delayed differentiation of epidermal cells with respect to flower maturity. We also found that developmental mechanisms other than pedomorphosis might have contributed to evolution of corolla morphology. Conclusions Our results highlight a need for considering alternatives to the flower-centric perspective when studying the origin of variation in flower morphology, as this can be generated by developmental processes that are also shared with leaves. Graphical Abstract ![]()
Supplementary Information The online version contains supplementary material available at 10.1186/s13227-021-00186-x.
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Affiliation(s)
- Marina M Strelin
- Grupo de Investigación en Ecología de la Polinización, Laboratorio Ecotono, INIBIOMA (CONICET - Universidad Nacional del Comahue), San Carlos de Bariloche, Río Negro, Argentina.
| | - Eduardo E Zattara
- Grupo de Investigación en Ecología de la Polinización, Laboratorio Ecotono, INIBIOMA (CONICET - Universidad Nacional del Comahue), San Carlos de Bariloche, Río Negro, Argentina
| | - Kristian Ullrich
- Department of Evolutionary Biology, August Thienemann Str. 2, 24306, Plön, Germany
| | - Mareike Schallenberg-Rüdinger
- IZMB - Institut für Zelluläre und Molekulare Botanik, Abt. Molekulare Evolution, University of Bonn, Kirschallee 1, 53115, Bonn, Germany
| | - Stefan Rensing
- Plant Cell Biology, Department of Biology, University of Marburg, Marburg, Germany
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10
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Liu H, Jia Y, Chai Y, Wang S, Chen H, Zhou X, Huang C, Guo S, Chen D. Whole-transcriptome analysis of differentially expressed genes between ray and disc florets and identification of flowering regulatory genes in Chrysanthemum morifolium. FRONTIERS IN PLANT SCIENCE 2022; 13:947331. [PMID: 35991433 PMCID: PMC9388166 DOI: 10.3389/fpls.2022.947331] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/18/2022] [Accepted: 06/29/2022] [Indexed: 05/13/2023]
Abstract
Chrysanthemum morifolium has ornamental and economic values. However, there has been minimal research on the morphology of the chrysanthemum florets and related genes. In this study, we used the leaves as a control to screen for differentially expressed genes between ray and disc florets in chrysanthemum flowers. A total of 8,359 genes were differentially expressed between the ray and disc florets, of which 3,005 were upregulated and 5,354 were downregulated in the disc florets. Important regulatory genes that control flower development and flowering determination were identified. Among them, we identified a TM6 gene (CmTM6-mu) that belongs to the Class B floral homeotic MADS-box transcription factor family, which was specifically expressed in disc florets. We isolated this gene and found it was highly similar to other typical TM6 lineage genes, but a single-base deletion at the 3' end of the open reading frame caused a frame shift that generated a protein in which the TM6-specific paleoAP3 motif was missing at the C terminus. The CmTM6-mu gene was ectopically expressed in Arabidopsis thaliana. Petal and stamen developmental processes were unaffected in transgenic A. thaliana lines; however, the flowering time was earlier than in the wild-type control. Thus, the C-terminal of paleoAP3 appears to be necessary for the functional performance in regulating the development of petals or stamens and CmTM6-mu may be involved in the regulation of flowering time in chrysanthemum. The results of this study will be useful for future research on flowering molecular mechanisms and for the breeding of novel flower types.
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Affiliation(s)
- Hua Liu
- Institute of Grassland, Flowers and Ecology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| | - Yin Jia
- College of Landscape Architecture, Sichuan Agricultural University, Chengdu, China
| | - Yuhong Chai
- Institute of Grassland, Flowers and Ecology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
- School of Horticulture and Landscape Architecture, Henan Institute of Science and Technology, Xinxiang, China
| | - Sen Wang
- Institute of Grassland, Flowers and Ecology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| | - Haixia Chen
- Institute of Grassland, Flowers and Ecology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| | - Xiumei Zhou
- School of Horticulture and Landscape Architecture, Henan Institute of Science and Technology, Xinxiang, China
| | - Conglin Huang
- Institute of Grassland, Flowers and Ecology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
- *Correspondence: Conglin Huang,
| | - Shuang Guo
- Chengdu Park City Construction Development Research Institute, Chengdu, China
- *Correspondence: Conglin Huang,
| | - Dongliang Chen
- Institute of Grassland, Flowers and Ecology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
- *Correspondence: Conglin Huang,
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11
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Zheng S, He J, Lin Z, Zhu Y, Sun J, Li L. Two MADS-box genes regulate vascular cambium activity and secondary growth by modulating auxin homeostasis in Populus. PLANT COMMUNICATIONS 2021; 2:100134. [PMID: 34746756 PMCID: PMC8553971 DOI: 10.1016/j.xplc.2020.100134] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/22/2020] [Revised: 11/02/2020] [Accepted: 11/19/2020] [Indexed: 05/20/2023]
Abstract
In trees, stem secondary growth depends on vascular cambium proliferation activity and subsequent cell differentiation, in which an auxin concentration gradient across the cambium area plays a crucial role in regulating the process. However, the underlying molecular mechanism for the establishment of auxin concentration is not fully understood. In this study, we identified two function-unknown MADS-box genes, VCM1 and VCM2, which are expressed specifically in the vascular cambium and modulate the subcellular homeostasis of auxin. Simultaneous knockdown of both VCM1 and VCM2 enhanced vascular cambium proliferation activity and subsequent xylem differentiation. Overexpression of VCM1 suppressed vascular cambium activity and wood formation by regulating PIN5 expression, which tuned the soluble auxin concentration in the vascular cambium area. This study reveals the role of VCM1 and VCM2 in regulating the proliferation activity of the vascular cambium and secondary growth by modulating the subcellular auxin homeostasis in Populus.
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Affiliation(s)
- Shuai Zheng
- National Key Laboratory of Plant Molecular Genetics and CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China
- University of the Chinese Academy of Sciences, Beijing 100049, China
| | - Jiajia He
- National Key Laboratory of Plant Molecular Genetics and CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China
- University of the Chinese Academy of Sciences, Beijing 100049, China
| | - Zengshun Lin
- Hunan Agricultural University, Hunan 4101287, China
| | | | - Jiayan Sun
- National Key Laboratory of Plant Molecular Genetics and CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China
| | - Laigeng Li
- National Key Laboratory of Plant Molecular Genetics and CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China
- Corresponding author
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Zhang C, Wei L, Yu X, Li H, Wang W, Wu S, Duan F, Bao M, Chan Z, He Y. Functional conservation and divergence of SEPALLATA-like genes in the development of two-type florets in marigold. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2021; 309:110938. [PMID: 34134845 DOI: 10.1016/j.plantsci.2021.110938] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2021] [Revised: 03/06/2021] [Accepted: 05/11/2021] [Indexed: 06/12/2023]
Abstract
Marigold (Tagetes erecta), as one member of Asteraceae family, bears a typical capitulum with two morphologically distinct florets. The SEPALLATA genes are involved in regulating the floral meristem determinacy, organ identity, fruit maturation, seed formation, and plant architecture. Here, five SEP-like genes were cloned and identified from marigold. Sequence alignment and phylogenetic analysis demonstrated that TeSEP3-1, TeSEP3-2, and TeSEP3-3 proteins were grouped into SEP3 clade, and TeSEP1 and TeSEP4 proteins were clustered into SEP1/2/4 clade. Quantitative real-time PCR analysis revealed that TeSEP1 and TeSEP3-3 were broadly expressed in floral organs, and that TeSEP3-2 and TeSEP4 were mainly expressed in pappus and corollas, while TeSEP3-1 was mainly expressed in two inner whorls. Ectopic expression of TeSEP1, TeSEP3-2, TeSEP3-3, and TeSEP4 in arabidopsis and tobacco resulted in early flowering. However, overexpression of TeSEP3-1 in arabidopsis and tobacco caused no visible phenotypic changes. Notably, overexpression of TeSEP4 in tobacco decreased the number of petals and stamens. Overexpression of TeSEP1 in tobacco led to longer sepals and simpler inflorescence architecture. The comprehensive pairwise interaction analysis suggested that TeSEP proteins had a broad interaction with class A, C, D, E proteins to form dimers. The yeast three-hybrid analysis suggested that in ternary complexes, class B proteins interacted with TeSEP3 by forming heterodimer TePI-TeAP3-2. The regulatory network analysis of MADS-box genes in marigold further indicated that TeSEP proteins played a "glue" role in regulating floral organ development, implying functional conservation and divergence of MADS box genes in regulating two-type floret developments. This study provides an insight into the formation mechanism of floral organs of two-type florets, thus broadening our knowledge of the genetic basis of flower evolution.
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Affiliation(s)
- Chunling Zhang
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Shizishan Street No. 1, Wuhan, 430070, China; Key Laboratory of Urban Agriculture in Central China (Pilot Run), Ministry of Agriculture, Wuhan, 430070, China.
| | - Ludan Wei
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Shizishan Street No. 1, Wuhan, 430070, China; Key Laboratory of Urban Agriculture in Central China (Pilot Run), Ministry of Agriculture, Wuhan, 430070, China.
| | - Xiaomin Yu
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Shizishan Street No. 1, Wuhan, 430070, China; Key Laboratory of Urban Agriculture in Central China (Pilot Run), Ministry of Agriculture, Wuhan, 430070, China.
| | - Hang Li
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Shizishan Street No. 1, Wuhan, 430070, China; Key Laboratory of Urban Agriculture in Central China (Pilot Run), Ministry of Agriculture, Wuhan, 430070, China.
| | - Wenjing Wang
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Shizishan Street No. 1, Wuhan, 430070, China; Key Laboratory of Urban Agriculture in Central China (Pilot Run), Ministry of Agriculture, Wuhan, 430070, China.
| | - Shenzhong Wu
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Shizishan Street No. 1, Wuhan, 430070, China; Key Laboratory of Urban Agriculture in Central China (Pilot Run), Ministry of Agriculture, Wuhan, 430070, China.
| | - Feng Duan
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Shizishan Street No. 1, Wuhan, 430070, China; Key Laboratory of Urban Agriculture in Central China (Pilot Run), Ministry of Agriculture, Wuhan, 430070, China.
| | - Manzhu Bao
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Shizishan Street No. 1, Wuhan, 430070, China; Key Laboratory of Urban Agriculture in Central China (Pilot Run), Ministry of Agriculture, Wuhan, 430070, China.
| | - Zhulong Chan
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Shizishan Street No. 1, Wuhan, 430070, China; Key Laboratory of Urban Agriculture in Central China (Pilot Run), Ministry of Agriculture, Wuhan, 430070, China.
| | - Yanhong He
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Shizishan Street No. 1, Wuhan, 430070, China; Key Laboratory of Urban Agriculture in Central China (Pilot Run), Ministry of Agriculture, Wuhan, 430070, China.
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Maren N, Zhao F, Aryal R, Touchell D, Liu W, Ranney T, Ashrafi H. Reproductive developmental transcriptome analysis of Tripidium ravennae (Poaceae). BMC Genomics 2021; 22:483. [PMID: 34182921 PMCID: PMC8237498 DOI: 10.1186/s12864-021-07641-y] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2021] [Accepted: 04/20/2021] [Indexed: 12/13/2022] Open
Abstract
BACKGROUND Tripidium ravennae is a cold-hardy, diploid species in the sugarcane complex (Poaceae subtribe Saccharinae) with considerable potential as a genetic resource for developing improved bioenergy and ornamental grasses. An improved understanding of the genetic regulation of reproductive processes (e.g., floral induction, inflorescence development, and seed development) will enable future applications of precision breeding and gene editing of floral and seed development. In particular, the ability to silence reproductive processes would allow for developing seedless forms of valuable but potentially invasive plants. The objective of this research was to characterize the gene expression environment of reproductive development in T. ravennae. RESULTS During the early phases of inflorescence development, multiple key canonical floral integrators and pathways were identified. Annotations of type II subfamily of MADS-box transcription factors, in particular, were over-represented in the GO enrichment analyses and tests for differential expression (FDR p-value < 0.05). The differential expression of floral integrators observed in the early phases of inflorescence development diminished prior to inflorescence determinacy regulation. Differential expression analysis did not identify many unique genes at mid-inflorescence development stages, though typical biological processes involved in plant growth and development expressed abundantly. The increase in inflorescence determinacy regulatory elements and putative homeotic floral development unigenes at mid-inflorescence development coincided with the expression of multiple meiosis annotations and multicellular organism developmental processes. Analysis of seed development identified multiple unigenes involved in oxidative-reductive processes. CONCLUSION Reproduction in grasses is a dynamic system involving the sequential coordination of complex gene regulatory networks and developmental processes. This research identified differentially expressed transcripts associated with floral induction, inflorescence development, and seed development in T. ravennae. These results provide insights into the molecular regulation of reproductive development and provide a foundation for future investigations and analyses, including genome annotation, functional genomics characterization, gene family evolutionary studies, comparative genomics, and precision breeding.
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Affiliation(s)
- Nathan Maren
- Department of Horticultural Science, North Carolina State University, Campus Box 7609, Raleigh, NC, 27695-7609, USA.
| | - Fangzhou Zhao
- Department of Horticultural Science, North Carolina State University, Campus Box 7609, Raleigh, NC, 27695-7609, USA
- College of Agriculture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Rishi Aryal
- Department of Horticultural Science, North Carolina State University, Campus Box 7609, Raleigh, NC, 27695-7609, USA
| | - Darren Touchell
- Mountain Crop Improvement Lab, Department of Horticultural Science, Mountain Horticultural Crops Research and Extension Center, North Carolina State University, 455 Research Drive, Mills River, NC, 28759-3423, USA
| | - Wusheng Liu
- Department of Horticultural Science, North Carolina State University, Campus Box 7609, Raleigh, NC, 27695-7609, USA
| | - Thomas Ranney
- Mountain Crop Improvement Lab, Department of Horticultural Science, Mountain Horticultural Crops Research and Extension Center, North Carolina State University, 455 Research Drive, Mills River, NC, 28759-3423, USA
| | - Hamid Ashrafi
- Department of Horticultural Science, North Carolina State University, Campus Box 7609, Raleigh, NC, 27695-7609, USA.
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Cavallini-Speisser Q, Morel P, Monniaux M. Petal Cellular Identities. FRONTIERS IN PLANT SCIENCE 2021; 12:745507. [PMID: 34777425 PMCID: PMC8579033 DOI: 10.3389/fpls.2021.745507] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/22/2021] [Accepted: 10/04/2021] [Indexed: 05/14/2023]
Abstract
Petals are typified by their conical epidermal cells that play a predominant role for the attraction and interaction with pollinators. However, cell identities in the petal can be very diverse, with different cell types in subdomains of the petal, in different cell layers, and depending on their adaxial-abaxial or proximo-distal position in the petal. In this mini-review, we give an overview of the main cell types that can be found in the petal and describe some of their functions. We review what is known about the genetic basis for the establishment of these cellular identities and their possible relation with petal identity and polarity specifiers expressed earlier during petal development, in an attempt to bridge the gap between organ identity and cell identity in the petal.
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Lei Y, Sun Y, Wang B, Yu S, Dai H, Li H, Zhang Z, Zhang J. Woodland strawberry WRKY71 acts as a promoter of flowering via a transcriptional regulatory cascade. HORTICULTURE RESEARCH 2020; 7:137. [PMID: 32922809 PMCID: PMC7458929 DOI: 10.1038/s41438-020-00355-4] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/09/2020] [Revised: 05/14/2020] [Accepted: 06/16/2020] [Indexed: 05/14/2023]
Abstract
The WRKY proteins are a large family of transcription factors that play important roles in stress responses and plant development. However, the roles of most WRKYs in strawberry are not well known. In this study, FvWRKY71 was isolated from the woodland strawberry 'Ruegen'. FvWRKY71 was highly expressed in the shoot apex and red fruit. Subcellular localization analysis showed that FvWRKY71 was located in the nucleus. Transactivation analysis showed that FvWRKY71 presented transcriptional activation activity in yeast. Overexpression of FvWRKY71 in Arabidopsis and woodland strawberry revealed early flowering in the transgenic plants compared with the wild-type control. Gene expression analysis indicated that the transcript levels of the flowering time and development integrator genes AP1, LFY, FT, AGL42, FUL, FPF1, SEP1, SEP2, and SEP3 were increased in FvWRKY71-overexpressing Arabidopsis and strawberry plants compared with the wild-type controls, which may result in accelerated flowering in transgenic plants. Furthermore, FvWRKY71 was proven to directly bind to the W-boxes (TTGACT/C) of the FvFUL, FvSEP1, FvAGL42, FvLFY, and FvFPF1 promoters in vitro and in vivo. Taken together, our results reveal a transcriptional regulatory cascade of FvWRKY71 involved in promoting flowering in woodland strawberry.
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Affiliation(s)
- Yingying Lei
- Liaoning Key Laboratory of Strawberry Breeding and Cultivation, College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenyang, 110866 China
| | - Yiping Sun
- Liaoning Key Laboratory of Strawberry Breeding and Cultivation, College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenyang, 110866 China
| | - Baotian Wang
- Liaoning Key Laboratory of Strawberry Breeding and Cultivation, College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenyang, 110866 China
| | - Shuang Yu
- Liaoning Key Laboratory of Strawberry Breeding and Cultivation, College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenyang, 110866 China
| | - Hongyan Dai
- Liaoning Key Laboratory of Strawberry Breeding and Cultivation, College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenyang, 110866 China
| | - He Li
- Liaoning Key Laboratory of Strawberry Breeding and Cultivation, College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenyang, 110866 China
| | - Zhihong Zhang
- Liaoning Key Laboratory of Strawberry Breeding and Cultivation, College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenyang, 110866 China
| | - Junxiang Zhang
- Liaoning Key Laboratory of Strawberry Breeding and Cultivation, College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenyang, 110866 China
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On the specificity of gene regulatory networks: How does network co-option affect subsequent evolution? Curr Top Dev Biol 2020; 139:375-405. [PMID: 32450967 DOI: 10.1016/bs.ctdb.2020.03.002] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
The process of multicellular organismal development hinges upon the specificity of developmental programs: for different parts of the organism to form unique features, processes must exist to specify each part. This specificity is thought to be hardwired into gene regulatory networks, which activate cohorts of genes in particular tissues at particular times during development. However, the evolution of gene regulatory networks sometimes occurs by mechanisms that sacrifice specificity. One such mechanism is network co-option, in which existing gene networks are redeployed in new developmental contexts. While network co-option may offer an efficient mechanism for generating novel phenotypes, losses of tissue specificity at redeployed network genes could restrict the ability of the affected traits to evolve independently. At present, there has not been a detailed discussion regarding how tissue specificity of network genes might be altered due to gene network co-option at its initiation, as well as how trait independence can be retained or restored after network co-option. A lack of clarity about network co-option makes it more difficult to speculate on the long-term evolutionary implications of this mechanism. In this review, we will discuss the possible initial outcomes of network co-option, outline the mechanisms by which networks may retain or subsequently regain specificity after network co-option, and comment on some of the possible evolutionary consequences of network co-option. We place special emphasis on the need to consider selectively-neutral outcomes of network co-option to improve our understanding of the role of this mechanism in trait evolution.
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Wang S, Gao J, Xue J, Xue Y, Li D, Guan Y, Zhang X. De novo sequencing of tree peony (Paeonia suffruticosa) transcriptome to identify critical genes involved in flowering and floral organ development. BMC Genomics 2019; 20:572. [PMID: 31296170 PMCID: PMC6624964 DOI: 10.1186/s12864-019-5857-0] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/05/2019] [Accepted: 05/29/2019] [Indexed: 12/29/2022] Open
Abstract
BACKGROUND Tree peony (Paeonia suffruticosa Andrews) is a globally famous ornamental flower, with large and colorful flowers and abundant flower types. However, a relatively short and uniform flowering period hinders the applications and production of ornamental tree peony. Unfortunately, the molecular mechanism of regulating flowering time and floral organ development in tree peony has yet to be elucidated. Because of the absence of genomic information, 454-based transcriptome sequence technology for de novo transcriptomics was used to identify the critical flowering genes using re-blooming, non-re-blooming, and wild species of tree peonies. RESULTS A total of 29,275 unigenes were obtained from the bud transcriptome, with an N50 of 776 bp. The average length of unigenes was 677.18 bp, and the longest sequence was 5815 bp. Functional annotation showed that 22,823, 17,321, 13,312, 20,041, and 9940 unigenes were annotated by NCBI-NR, Swiss-Prot, COG, GO, and KEGG, respectively. Within the differentially expressed genes (DEGs) 64 flowering-related genes were identified and some important flowering genes were also characterized by bioinformatics methods, reverse transcript polymerase chain reaction (RT-PCR), and rapid-amplification of cDNA ends (RACE). Then, the putative genetic network of flowering induction pathways and a floral organ development model were put forward, according to the comparisons of DEGs in any two samples and expression levels of the important flowering genes in differentiated buds, buds from different developmental stages, and with GA or vernalization treated. In tree peony, five pathways (long day, vernalization, autonomous, age, and gibberellin) regulated flowering, and the floral organ development followed an ABCE model. Moreover, it was also found that the genes PsAP1, PsCOL1, PsCRY1, PsCRY2, PsFT, PsLFY, PsLHY, PsGI, PsSOC1, and PsVIN3 probably regulated re-blooming of tree peony. CONCLUSION This study provides a comprehensive report on the flowering-related genes in tree peony for the first time and investigated the expression levels of the critical flowering related genes in buds of different cultivars, developmental stages, differentiated primordium, and flower parts. These results could provide valuable insights into the molecular mechanisms of flowering time regulation and floral organ development.
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Affiliation(s)
- Shunli Wang
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops, Ministry of Agriculture and Rural Affairs, Beijing, People's Republic of China.,Institute of Vegetables and Flowers, Chinese Academy of Agricultural Science, Institute of Peony, Chinese Academy of Agricultural Science, Beijing, 100081, China
| | - Jie Gao
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops, Ministry of Agriculture and Rural Affairs, Beijing, People's Republic of China.,Institute of Vegetables and Flowers, Chinese Academy of Agricultural Science, Institute of Peony, Chinese Academy of Agricultural Science, Beijing, 100081, China
| | - Jingqi Xue
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops, Ministry of Agriculture and Rural Affairs, Beijing, People's Republic of China.,Institute of Vegetables and Flowers, Chinese Academy of Agricultural Science, Institute of Peony, Chinese Academy of Agricultural Science, Beijing, 100081, China
| | - Yuqian Xue
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops, Ministry of Agriculture and Rural Affairs, Beijing, People's Republic of China.,Institute of Vegetables and Flowers, Chinese Academy of Agricultural Science, Institute of Peony, Chinese Academy of Agricultural Science, Beijing, 100081, China
| | - Dandan Li
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops, Ministry of Agriculture and Rural Affairs, Beijing, People's Republic of China.,Institute of Vegetables and Flowers, Chinese Academy of Agricultural Science, Institute of Peony, Chinese Academy of Agricultural Science, Beijing, 100081, China
| | - Yanren Guan
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops, Ministry of Agriculture and Rural Affairs, Beijing, People's Republic of China.,Institute of Vegetables and Flowers, Chinese Academy of Agricultural Science, Institute of Peony, Chinese Academy of Agricultural Science, Beijing, 100081, China
| | - Xiuxin Zhang
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops, Ministry of Agriculture and Rural Affairs, Beijing, People's Republic of China. .,Institute of Vegetables and Flowers, Chinese Academy of Agricultural Science, Institute of Peony, Chinese Academy of Agricultural Science, Beijing, 100081, China.
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Chen R, Ma J, Luo D, Hou X, Ma F, Zhang Y, Meng Y, Zhang H, Guo W. CaMADS, a MADS-box transcription factor from pepper, plays an important role in the response to cold, salt, and osmotic stress. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2019; 280:164-174. [PMID: 30823994 DOI: 10.1016/j.plantsci.2018.11.020] [Citation(s) in RCA: 38] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/07/2018] [Revised: 11/05/2018] [Accepted: 11/28/2018] [Indexed: 05/22/2023]
Abstract
MADS-box family transcription factors play essential roles in the growth and development of plants, and some MADS-box genes have also been found to participate in the stress-response. At present, little information regarding stress-related MADS-box genes is available in pepper. We isolated a MADS-box transcription factor gene from Capsicum annuum, which we named CaMADS. CaMADS expression is induced by low and high temperature, salt, and osmotic stress, and also by abscisic acid (ABA), salicylic acid (SA), methyl-jasmonic acid (MeJA), and CaCl2. To understand the function of CaMADS in the abiotic stress response, we generated pepper plants in which CaMADS expression was down-regulated using VIGS (Virus-induced Gene Silencing), and also transgenic Arabidopsis plants overexpressing CaMADS. We found that CaMADS-down-regulated seedlings were more seriously injured than WT after cold, NaCl, and mannitol treatment, and showed increased electrolyte leakage, malondialdehyde (MDA) levels, and lower chlorophyll content. CaMADS-overexpressing Arabidopsis plants were more tolerant to these stresses than WT, and showed significantly high survival rates and lower H2O2 and super oxide radical contents after cold treatment. CaMADS-overexpressing plants had higher germination rates and percentages of green cotyledons following NaCl and mannitol treatment. Root lengths and fresh weight in CaMADS-overexpressing plants were also significantly longer and higher, respectively, than in WT plants. Taken together, our results suggest that CaMADS functions as a positive stress-responsive transcription factor in the cold, salt, and osmotic stress signaling pathways.
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Affiliation(s)
- Rugang Chen
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China; State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, China.
| | - Jihui Ma
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Dan Luo
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Xiaomeng Hou
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Fang Ma
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Yumeng Zhang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Yuancheng Meng
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Huafeng Zhang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Weili Guo
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China
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Li Y, Min L, Zhang L, Hu Q, Wu Y, Li J, Xie S, Ma Y, Zhang X, Zhu L. Promoters of Arabidopsis Casein kinase I-like 2 and 7 confer specific high-temperature response in anther. PLANT MOLECULAR BIOLOGY 2018; 98:33-49. [PMID: 30145767 DOI: 10.1007/s11103-018-0760-7] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/13/2018] [Accepted: 07/30/2018] [Indexed: 05/18/2023]
Abstract
KEY MESSAGE: (1) We systematically analyze the promoter activities of AtCKLs in various tissues; (2) AtCKL2 and AtCKL7 were expressed in early developmental anthers under high temperature (HT) conditions; (3) AtMYB24 may function as a positive regulator of AtCKL2 and AtCKL7 expression under HT. High temperature (HT) can seriously impede plant growth and development, causing severe loss of crop production. In Arabidopsis, AtCKL genes show high similarity to GhCKI, a gene reported to disrupt tapetal programmed cell death in cotton. However, most of AtCKL genes are not well characterized. Here, we systematically analyzed the expression patterns of AtCKLs in various tissues. The expression of AtCKL2 and AtCKL7 was induced in early anther development under HT, which is similar to the case of GhCKI. In silico analysis of AtCKL2 and AtCKL7 promoters indicated that four types of transcription factors (TFs) (MADS, NAC, WRKY and R2R3-MYB) might bind to AtCKL2 and AtCKL7 promoters. Furthermore, three MADS, three NAC, one WRKY, and three R2R3-MYB TFs were up-regulated in stage 1-8 anthers and three R2R3-MYB TFs were up-regulated in stage 9-10 anthers under HT, implying the important roles of R2R3-MYB genes in the response of anthers to HT. Among the R2R3-MYB genes, AtMYB24 showed the similar expression as AtCKL2 and AtCKL7 in the anthers under HT. Additionally, yeast one-hybrid and dual-luciferase reporter system assays verified that AtMYB24 could bind to AtCKL2 and AtCKL7 promoters and activate the expression of these two genes. In brief, this study provides the overall expression profiles of AtCKLs, useful information for unraveling the molecular mechanism of AtCKL2 and AtCKL7 gene expression in early anther development under HT, and important clues for elucidating the mechanism of transcriptional regulation of CKI genes in plant anther under HT, which are critical to the reduction of crop yield loss resulting from HT.
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Affiliation(s)
- Yaoyao Li
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei, 430070, China
| | - Ling Min
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei, 430070, China.
| | - Lin Zhang
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei, 430070, China
| | - Qin Hu
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei, 430070, China
| | - Yuanlong Wu
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei, 430070, China
| | - Jie Li
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei, 430070, China
| | - Sai Xie
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei, 430070, China
| | - Yizan Ma
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei, 430070, China
| | - Xianlong Zhang
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei, 430070, China
| | - Longfu Zhu
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei, 430070, China.
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Aerts N, de Bruijn S, van Mourik H, Angenent GC, van Dijk ADJ. Comparative analysis of binding patterns of MADS-domain proteins in Arabidopsis thaliana. BMC PLANT BIOLOGY 2018; 18:131. [PMID: 29940855 PMCID: PMC6019531 DOI: 10.1186/s12870-018-1348-8] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/23/2017] [Accepted: 06/11/2018] [Indexed: 05/05/2023]
Abstract
BACKGROUND Correct flower formation requires highly specific temporal and spatial regulation of gene expression. In Arabidopsis thaliana the majority of the master regulators that determine flower organ identity belong to the MADS-domain transcription factor family. The canonical DNA binding motif for this transcription factor family is the CArG-box, which has the consensus CC(A/T)6GG. However, so far, a comprehensive analysis of MADS-domain binding patterns has not yet been performed. RESULTS Eight publicly available ChIP-seq datasets of MADS-domain proteins that regulate the floral transition and flower formation were analyzed. Surprisingly, the preferred DNA binding motif of each protein was a CArG-box with an NAA extension. Furthermore, motifs of other transcription factors were found in the vicinity of binding sites of MADS-domain transcription factors, suggesting that interaction of MADS-domain proteins with other transcription factors is important for target gene regulation. Finally, conservation of CArG-boxes between Arabidopsis ecotypes was assessed to obtain information about their evolutionary importance. CArG-boxes that fully matched the consensus were more conserved than other CArG-boxes, suggesting that the perfect CArG-box is evolutionary more important than other CArG-box variants. CONCLUSION Our analysis provides detailed insight into MADS-domain protein binding patterns. The results underline the importance of an extended version of the CArG-box and provide a first view on evolutionary conservation of MADS-domain protein binding sites in Arabidopsis ecotypes.
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Affiliation(s)
- Niels Aerts
- Bioscience, Wageningen UR, Droevendaalsesteeg 1, Wageningen, The Netherlands
- Plant-Microbe Interactions, Utrecht University, Padualaan 8, Utrecht, The Netherlands
| | - Suzanne de Bruijn
- Bioscience, Wageningen UR, Droevendaalsesteeg 1, Wageningen, The Netherlands
- Laboratory of Molecular Biology, Wageningen University, Wageningen, The Netherlands
| | - Hilda van Mourik
- Bioscience, Wageningen UR, Droevendaalsesteeg 1, Wageningen, The Netherlands
- Laboratory of Molecular Biology, Wageningen University, Wageningen, The Netherlands
| | - Gerco C. Angenent
- Bioscience, Wageningen UR, Droevendaalsesteeg 1, Wageningen, The Netherlands
- Laboratory of Molecular Biology, Wageningen University, Wageningen, The Netherlands
| | - Aalt D. J. van Dijk
- Bioscience, Wageningen UR, Droevendaalsesteeg 1, Wageningen, The Netherlands
- Biometris, Wageningen UR, Droevendaalsesteeg 1, Wageningen, The Netherlands
- Bioinformatics, Wageningen UR, Droevendaalsesteeg 1, Wageningen, The Netherlands
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21
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Liu Q, Han R, Wu K, Zhang J, Ye Y, Wang S, Chen J, Pan Y, Li Q, Xu X, Zhou J, Tao D, Wu Y, Fu X. G-protein βγ subunits determine grain size through interaction with MADS-domain transcription factors in rice. Nat Commun 2018; 9:852. [PMID: 29487282 PMCID: PMC5829230 DOI: 10.1038/s41467-018-03047-9] [Citation(s) in RCA: 154] [Impact Index Per Article: 25.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2017] [Accepted: 01/12/2018] [Indexed: 01/16/2023] Open
Abstract
The simultaneous improvement of grain quality and yield of cereal crops is a major challenge for modern agriculture. Here we show that a rice grain yield quantitative trait locus qLGY3 encodes a MADS-domain transcription factor OsMADS1, which acts as a key downstream effector of G-protein βγ dimers. The presence of an alternatively spliced protein OsMADS1lgy3 is shown to be associated with formation of long and slender grains, resulting in increases in both grain quality and yield potential of rice. The Gγ subunits GS3 and DEP1 interact directly with the conserved keratin-like domain of MADS transcription factors, function as cofactors to enhance OsMADS1 transcriptional activity and promote the co-operative transactivation of common target genes, thereby regulating grain size and shape. We also demonstrate that combining OsMADS1 lgy3 allele with high-yield-associated dep1-1 and gs3 alleles represents an effective strategy for simultaneously improving both the productivity and end-use quality of rice.
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Affiliation(s)
- Qian Liu
- The State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 100101, Beijing, China
| | - Ruixi Han
- The State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 100101, Beijing, China.,College of Life Sciences, University of Chinese Academy of Sciences, 100049, Beijing, China.,Development Center for Science and Technology, Ministry of Agriculture, 100122, Beijing, China
| | - Kun Wu
- The State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 100101, Beijing, China.,Institute of Technical Biology and Agriculture Engineering, Hefei Institutes of Physical Science, Chinese Academy of Sciences, 230031, Hefei, China
| | - Jianqing Zhang
- The State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 100101, Beijing, China.,College of Life Sciences, University of Chinese Academy of Sciences, 100049, Beijing, China
| | - Yafeng Ye
- The State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 100101, Beijing, China
| | - Shuansuo Wang
- The State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 100101, Beijing, China
| | - Jianfeng Chen
- The State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 100101, Beijing, China.,College of Life Sciences, University of Chinese Academy of Sciences, 100049, Beijing, China
| | - Yajun Pan
- The State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 100101, Beijing, China
| | - Qi Li
- The State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 100101, Beijing, China
| | - Xiaopeng Xu
- The State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 100101, Beijing, China.,Root Biology Center, South China Agricultural University, 510642, Guangzhou, China
| | - Jiawu Zhou
- Food Crops Research, Institute Yunnan Academy of Agricultural Sciences, 650200, Kunming, China
| | - Dayun Tao
- Food Crops Research, Institute Yunnan Academy of Agricultural Sciences, 650200, Kunming, China
| | - Yuejin Wu
- Institute of Technical Biology and Agriculture Engineering, Hefei Institutes of Physical Science, Chinese Academy of Sciences, 230031, Hefei, China
| | - Xiangdong Fu
- The State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 100101, Beijing, China. .,College of Life Sciences, University of Chinese Academy of Sciences, 100049, Beijing, China.
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22
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Koshimizu S, Kofuji R, Sasaki-Sekimoto Y, Kikkawa M, Shimojima M, Ohta H, Shigenobu S, Kabeya Y, Hiwatashi Y, Tamada Y, Murata T, Hasebe M. Physcomitrella MADS-box genes regulate water supply and sperm movement for fertilization. NATURE PLANTS 2018; 4:36-45. [PMID: 29296005 DOI: 10.1038/s41477-017-0082-9] [Citation(s) in RCA: 37] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/2017] [Accepted: 11/24/2017] [Indexed: 05/05/2023]
Abstract
MIKC classic (MIKCC)-type MADS-box genes encode transcription factors that function in various developmental processes, including angiosperm floral organ identity. Phylogenetic analyses of the MIKCC-type MADS-box family, including genes from non-flowering plants, suggest that the increased numbers of these genes in flowering plants is related to their functional divergence; however, their precise functions in non-flowering plants and their evolution throughout land plant diversification are unknown. Here, we show that MIKCC-type MADS-box genes in the moss Physcomitrella patens function in two ways to enable fertilization. Analyses of protein localization, deletion mutants and overexpression lines of all six genes indicate that three MIKCC-type MADS-box genes redundantly regulate cell division and growth in the stems for appropriate external water conduction, as well as the formation of sperm with motile flagella. The former function appears to be maintained in the flowering plant lineage, while the latter was lost in accordance with the loss of sperm.
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Affiliation(s)
- Shizuka Koshimizu
- Division of Evolutionary Biology, National Institute for Basic Biology, Okazaki, 444-8585, Japan
- Department of Basic Biology, School of Life Science, SOKENDAI (The Graduate University for Advanced Studies), Okazaki, 444-8585, Japan
| | - Rumiko Kofuji
- Division of Evolutionary Biology, National Institute for Basic Biology, Okazaki, 444-8585, Japan
- Graduate School of Natural Science and Technology, Kanazawa University, Kanazawa, 920-1192, Japan
| | - Yuko Sasaki-Sekimoto
- School of Life Science and Technology, Tokyo Institute of Technology, Yokohama, 226-8501, Japan
- JST CREST, Yokohama, 226-8501, Japan
| | - Masahide Kikkawa
- Department of Cell Biology and Anatomy, Graduate School of Medicine, The University of Tokyo, Bunkyo, 113-0033, Japan
| | - Mie Shimojima
- School of Life Science and Technology, Tokyo Institute of Technology, Yokohama, 226-8501, Japan
| | - Hiroyuki Ohta
- School of Life Science and Technology, Tokyo Institute of Technology, Yokohama, 226-8501, Japan
- JST CREST, Yokohama, 226-8501, Japan
- The Earth-Life Science Institute, Tokyo Institute of Technology, Meguro, 152-8550, Japan
| | - Shuji Shigenobu
- Department of Basic Biology, School of Life Science, SOKENDAI (The Graduate University for Advanced Studies), Okazaki, 444-8585, Japan
- Functional Genomics Facility, National Institute for Basic Biology, Okazaki, 444-8585, Japan
| | - Yukiko Kabeya
- Division of Evolutionary Biology, National Institute for Basic Biology, Okazaki, 444-8585, Japan
| | - Yuji Hiwatashi
- Division of Evolutionary Biology, National Institute for Basic Biology, Okazaki, 444-8585, Japan
- Department of Basic Biology, School of Life Science, SOKENDAI (The Graduate University for Advanced Studies), Okazaki, 444-8585, Japan
- School of Food Industrial Sciences, Miyagi University, Sendai, 982-0215, Japan
| | - Yosuke Tamada
- Division of Evolutionary Biology, National Institute for Basic Biology, Okazaki, 444-8585, Japan
- Department of Basic Biology, School of Life Science, SOKENDAI (The Graduate University for Advanced Studies), Okazaki, 444-8585, Japan
| | - Takashi Murata
- Division of Evolutionary Biology, National Institute for Basic Biology, Okazaki, 444-8585, Japan
- Department of Basic Biology, School of Life Science, SOKENDAI (The Graduate University for Advanced Studies), Okazaki, 444-8585, Japan
| | - Mitsuyasu Hasebe
- Division of Evolutionary Biology, National Institute for Basic Biology, Okazaki, 444-8585, Japan.
- Department of Basic Biology, School of Life Science, SOKENDAI (The Graduate University for Advanced Studies), Okazaki, 444-8585, Japan.
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23
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Affiliation(s)
- Federico Ariel
- Instituto de Agrobiotecnología del Litoral, Universidad Nacional del Litoral, CONICET, Facultad de Bioquímica y Ciencias Biológicas, Colectora Ruta Nacional 168 km 0, 3000, RN168 Santa Fe, Argentina
| | - Martin Crespi
- Institute of Plant Sciences Paris-Saclay IPS2, CNRS, INRA, Universities of Paris-Sud, Evry and Paris Diderot, University of Paris-Saclay, Bat 630, Rue de Noetzlin, 91192 Gif sur Yvette, France
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24
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Wang J, Wang H, Ding L, Song A, Shen F, Jiang J, Chen S, Chen F. Transcriptomic and hormone analyses reveal mechanisms underlying petal elongation in Chrysanthemum morifolium 'Jinba'. PLANT MOLECULAR BIOLOGY 2017; 93:593-606. [PMID: 28108965 DOI: 10.1007/s11103-017-0584-x] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/07/2016] [Accepted: 01/10/2017] [Indexed: 05/21/2023]
Abstract
Auxin regulates chrysanthemum petal elongation by promoting cell elongation. Transcriptomic analysis shows that auxin signal transduction may connect with other transcription factors by TCPs to regulate chrysanthemum petal elongation. As an ornamental species, Chrysanthemum morifolium has high ornamental and economic value. Petal size is the primary factor that influences the ornamental value of chrysanthemum, but the mechanism underlying the development of C. morifolium petals remains unclear. In our study, we tracked the growth of petals and found that the basal region of 'Jinba' petals showed a higher elongation rate, exhibiting rapid cell elongation during petal growth. During petal elongation growth, auxin was demonstrated to promote cell elongation and an increase in cell numbers in the petal basal region. To further study the molecular mechanisms underlying petal growth, the RNA-seq (high-throughput cDNA sequencing) technique was employed. Four cDNA libraries were assembled from petals in the budding, bud breaking, early blooming and full blooming stages of 'Jinba' flower development. Analysis of differentially expressed genes (DEGs) showed that auxin was the most important regulator in controlling petal growth. The TEOSINTEBRANCHED 1, CYCLOIDEA and PCF transcription factor genes (TCPs), basic helix-loop-helix-encoding gene (bHLH), glutaredoxin-C (GRXC) and other zinc finger protein genes exhibited obvious up-regulation and might have significant effects on the growth of 'Jinba' petals. Given the interaction between these genes in Arabidopsis thaliana, we speculated that auxin signal transduction might exhibit a close relationship with transcription factors through TCPs. In summary, we present the first comprehensive transcriptomic and hormone analyses of C. morifolium petals. The results offer direction in identifying the mechanism underlying the development of chrysanthemum petals in the elongated phase and have great significance in improving the ornamental characteristics of C. morifolium via molecular breeding.
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Affiliation(s)
- Jingjing Wang
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Haibin Wang
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Lian Ding
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Aiping Song
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Feng Shen
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Jiafu Jiang
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Sumei Chen
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Fadi Chen
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China.
- Jiangsu Province Engineering Lab for Modern Facility Agriculture Technology & Equipment, Nanjing, 210095, China.
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25
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Liu N, Tu L, Wang L, Hu H, Xu J, Zhang X. MicroRNA 157-targeted SPL genes regulate floral organ size and ovule production in cotton. BMC PLANT BIOLOGY 2017; 17:7. [PMID: 28068913 PMCID: PMC5223427 DOI: 10.1186/s12870-016-0969-z] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/13/2016] [Accepted: 12/23/2016] [Indexed: 05/18/2023]
Abstract
BACKGROUND microRNAs (miRNAs) have been involved in regulation of diverse spectrum of plant development processes in many species. In cotton, few miRNAs have been well characterised in floral organ development. Floral organ, which should be finely tuned, is a crucial factor affecting the yield of cotton. Therefore, it is well worth revealing the function of miRNAs in regulation of floral organ development. Here, we report the role of miRNA156/157 in regulation of floral organ size in cotton. RESULTS Over-expression of the GhmiRNA157 precursor in cotton (Gossypium hirsutum) resulted in smaller floral organs, fewer ovules and decreased seed production due to suppression of cell proliferation and cell elongation. Five SQUAMOSA promoter-binding protein-like (SPL) genes were identified as targets of GhmiRNA157 using a RNA ligase-mediated rapid amplification of cDNA end approach, and the expression level of miR157-targeted GhSPLs decreased in the miR157 over-expression lines, indicating the presence of the miR157/SPL axis in cotton. Two MADS-box genes, orthologs of AtAGL6 and SITDR8, which are associated with floral organ development and reproductive production, were repressed in the miR157 over-expression lines. In addition, auxin-inducible genes were also down-regulated, and auxin signal visualized by a DR5::GUS reporter was attenuated in the miR157 over-expression lines. CONCLUSIONS Our results indicate that the miR157/SPL axis controls floral organ growth and ovule production by regulating MADS-box genes and auxin signal transduction. The work further elucidates the mechanism of floral organ development and provides helpful molecular basis for improvement of cotton yield.
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Affiliation(s)
- Nian Liu
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei 430070 China
| | - Lili Tu
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei 430070 China
| | - Lichen Wang
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei 430070 China
| | - Haiyan Hu
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei 430070 China
| | - Jiao Xu
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei 430070 China
| | - Xianlong Zhang
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei 430070 China
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26
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Poyatos-Pertíñez S, Quinet M, Ortíz-Atienza A, Yuste-Lisbona FJ, Pons C, Giménez E, Angosto T, Granell A, Capel J, Lozano R. A Factor Linking Floral Organ Identity and Growth Revealed by Characterization of the Tomato Mutant unfinished flower development ( ufd). FRONTIERS IN PLANT SCIENCE 2016; 7:1648. [PMID: 27872633 PMCID: PMC5098122 DOI: 10.3389/fpls.2016.01648] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/05/2016] [Accepted: 10/19/2016] [Indexed: 05/29/2023]
Abstract
Floral organogenesis requires coordinated interactions between genes specifying floral organ identity and those regulating growth and size of developing floral organs. With the aim to isolate regulatory genes linking both developmental processes (i.e., floral organ identity and growth) in the tomato model species, a novel mutant altered in the formation of floral organs was further characterized. Under normal growth conditions, floral organ primordia of mutant plants were correctly initiated, however, they were unable to complete their development impeding the formation of mature and fertile flowers. Thus, the growth of floral buds was blocked at an early stage of development; therefore, we named this mutant as unfinished flower development (ufd). Genetic analysis performed in a segregating population of 543 plants showed that the abnormal phenotype was controlled by a single recessive mutation. Global gene expression analysis confirmed that several MADS-box genes regulating floral identity as well as other genes participating in cell division and different hormonal pathways were affected in their expression patterns in ufd mutant plants. Moreover, ufd mutant inflorescences showed higher hormone contents, particularly ethylene precursor 1-aminocyclopropane-1-carboxylic acid (ACC) and strigol compared to wild type. Such results indicate that UFD may have a key function as positive regulator of the development of floral primordia once they have been initiated in the four floral whorls. This function should be performed by affecting the expression of floral organ identity and growth genes, together with hormonal signaling pathways.
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Affiliation(s)
- Sandra Poyatos-Pertíñez
- Centro de Investigación en Biotecnología Agroalimentaria, Universidad de AlmeríaAlmería, Spain
| | - Muriel Quinet
- Centro de Investigación en Biotecnología Agroalimentaria, Universidad de AlmeríaAlmería, Spain
| | - Ana Ortíz-Atienza
- Centro de Investigación en Biotecnología Agroalimentaria, Universidad de AlmeríaAlmería, Spain
| | | | - Clara Pons
- Laboratorio de Genómica de Plantas y Biotecnología, Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas, Universidad Politécnica de ValenciaValencia, Spain
| | - Estela Giménez
- Centro de Investigación en Biotecnología Agroalimentaria, Universidad de AlmeríaAlmería, Spain
| | - Trinidad Angosto
- Centro de Investigación en Biotecnología Agroalimentaria, Universidad de AlmeríaAlmería, Spain
| | - Antonio Granell
- Laboratorio de Genómica de Plantas y Biotecnología, Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas, Universidad Politécnica de ValenciaValencia, Spain
| | - Juan Capel
- Centro de Investigación en Biotecnología Agroalimentaria, Universidad de AlmeríaAlmería, Spain
| | - Rafael Lozano
- Centro de Investigación en Biotecnología Agroalimentaria, Universidad de AlmeríaAlmería, Spain
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27
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Huang JZ, Lin CP, Cheng TC, Huang YW, Tsai YJ, Cheng SY, Chen YW, Lee CP, Chung WC, Chang BCH, Chin SW, Lee CY, Chen FC. The genome and transcriptome of Phalaenopsis yield insights into floral organ development and flowering regulation. PeerJ 2016; 4:e2017. [PMID: 27190718 PMCID: PMC4868593 DOI: 10.7717/peerj.2017] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2016] [Accepted: 04/17/2016] [Indexed: 01/28/2023] Open
Abstract
The Phalaenopsis orchid is an important potted flower of high economic value around the world. We report the 3.1 Gb draft genome assembly of an important winter flowering Phalaenopsis ‘KHM190’ cultivar. We generated 89.5 Gb RNA-seq and 113 million sRNA-seq reads to use these data to identify 41,153 protein-coding genes and 188 miRNA families. We also generated a draft genome for Phalaenopsis pulcherrima ‘B8802,’ a summer flowering species, via resequencing. Comparison of genome data between the two Phalaenopsis cultivars allowed the identification of 691,532 single-nucleotide polymorphisms. In this study, we reveal that the key role of PhAGL6b in the regulation of labellum organ development involves alternative splicing in the big lip mutant. Petal or sepal overexpressing PhAGL6b leads to the conversion into a lip-like structure. We also discovered that the gibberellin pathway that regulates the expression of flowering time genes during the reproductive phase change is induced by cool temperature. Our work thus depicted a valuable resource for the flowering control, flower architecture development, and breeding of the Phalaenopsis orchids.
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Affiliation(s)
- Jian-Zhi Huang
- Department of Plant Industry, National Pingtung University of Science and Technology, Pingtung, Taiwan
| | - Chih-Peng Lin
- Yourgene Bioscience, Shu-Lin District, New Taipei City, Taiwan.,Department of Biotechnology, School of Health Technology, Ming Chuan University, Gui Shan District, Taoyuan, Taiwan
| | - Ting-Chi Cheng
- Department of Plant Industry, National Pingtung University of Science and Technology, Pingtung, Taiwan
| | - Ya-Wen Huang
- Department of Plant Industry, National Pingtung University of Science and Technology, Pingtung, Taiwan
| | - Yi-Jung Tsai
- Department of Plant Industry, National Pingtung University of Science and Technology, Pingtung, Taiwan
| | - Shu-Yun Cheng
- Department of Plant Industry, National Pingtung University of Science and Technology, Pingtung, Taiwan
| | - Yi-Wen Chen
- Department of Plant Industry, National Pingtung University of Science and Technology, Pingtung, Taiwan
| | - Chueh-Pai Lee
- Yourgene Bioscience, Shu-Lin District, New Taipei City, Taiwan
| | - Wan-Chia Chung
- Yourgene Bioscience, Shu-Lin District, New Taipei City, Taiwan
| | - Bill Chia-Han Chang
- Yourgene Bioscience, Shu-Lin District, New Taipei City, Taiwan.,Faculty of Veterinary Science, The University of Melbourne, Parkville, Victoria, Australia
| | - Shih-Wen Chin
- Department of Plant Industry, National Pingtung University of Science and Technology, Pingtung, Taiwan
| | - Chen-Yu Lee
- Department of Plant Industry, National Pingtung University of Science and Technology, Pingtung, Taiwan
| | - Fure-Chyi Chen
- Department of Plant Industry, National Pingtung University of Science and Technology, Pingtung, Taiwan
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28
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Meristem maintenance, auxin, jasmonic and abscisic acid pathways as a mechanism for phenotypic plasticity in Antirrhinum majus. Sci Rep 2016; 6:19807. [PMID: 26804132 PMCID: PMC4726321 DOI: 10.1038/srep19807] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2015] [Accepted: 12/14/2015] [Indexed: 12/31/2022] Open
Abstract
Plants grow under climatic changing conditions that cause modifications in vegetative and reproductive development. The degree of changes in organ development i.e. its phenotypic plasticity seems to be determined by the organ identity and the type of environmental cue. We used intraspecific competition and found that Antirrhinum majus behaves as a decoupled species for lateral organ size and number. Crowding causes decreases in leaf size and increased leaf number whereas floral size is robust and floral number is reduced. Genes involved in shoot apical meristem maintenance like ROA and HIRZ, cell cycle (CYCD3a; CYCD3b, HISTONE H4) or organ polarity (GRAM) were not significantly downregulated under crowding conditions. A transcriptomic analysis of inflorescence meristems showed Gene Ontology enriched pathways upregulated including Jasmonic and Abscisic acid synthesis and or signalling. Genes involved in auxin synthesis such as AmTAR2 and signalling AmANT were not affected by crowding. In contrast, AmJAZ1, AmMYB21, AmOPCL1 and AmABA2 were significantly upregulated. Our work provides a mechanistic working hypothesis where a robust SAM and stable auxin signalling enables a homogeneous floral size while changes in JA and ABA signalling maybe responsible for the decreased leaf size and floral number.
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29
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Sun JJ, Li F, Wang DH, Liu XF, Li X, Liu N, Gu HT, Zou C, Luo JC, He CX, Huang SW, Zhang XL, Xu ZH, Bai SN. CsAP3: A Cucumber Homolog to Arabidopsis APETALA3 with Novel Characteristics. FRONTIERS IN PLANT SCIENCE 2016; 7:1181. [PMID: 27540391 PMCID: PMC4972961 DOI: 10.3389/fpls.2016.01181] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/13/2016] [Accepted: 07/22/2016] [Indexed: 05/11/2023]
Abstract
In our previous efforts to understand the regulatory mechanisms of cucumber unisexual flower development, we observed a stamen-specific down-regulation of the ethylene receptor CsETR1 in stage 6 female flowers of cucumber (Cucumis sativus L.). This down-regulation is correlated with the primordial anther-specific DNA damage that characterizes inappropriate stamen development in cucumber female flowers. To understand how CsETR1 is down regulated in the stamen, we characterized a cucumber MADS box gene homologous to Arabidopsis AP3, CsAP3. We demonstrated that CsAP3 is functionally equivalent to the Arabidopsis B-class MADS gene AP3. However, three novel characteristics of CsAP3 were found. These include firstly, binding and activating CsETR1 promoter in vitro and in vivo; secondly, containing a GV repeat in its C-terminus, which is conserved in cucurbits and required for the transcription activation; and thirdly, decreased expression as the node number increases, which is similar to that found for CsETR1. These findings revealed not only the conserved function of CsAP3 as a B-class floral identity gene, but also its unique functions in regulation of female flower development in cucumber.
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Affiliation(s)
- Jin-Jing Sun
- State Key Laboratory of Protein and Plant Gene ResearchBeijing, China
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural SciencesBeijing, China
- College of Life Sciences, Peking UniversityBeijing, China
| | - Feng Li
- State Key Laboratory of Protein and Plant Gene ResearchBeijing, China
- College of Life Sciences, Peking UniversityBeijing, China
| | - Dong-Hui Wang
- State Key Laboratory of Protein and Plant Gene ResearchBeijing, China
- College of Life Sciences, Peking UniversityBeijing, China
| | - Xiao-Feng Liu
- Department of Vegetable Sciences, Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, China Agricultural UniversityBeijing, China
| | - Xia Li
- College of Life Sciences, Peking UniversityBeijing, China
| | - Na Liu
- State Key Laboratory of Protein and Plant Gene ResearchBeijing, China
- College of Life Sciences, Peking UniversityBeijing, China
| | - Hai-Tao Gu
- State Key Laboratory of Protein and Plant Gene ResearchBeijing, China
- College of Life Sciences, Peking UniversityBeijing, China
| | - Cheng Zou
- State Key Laboratory of Protein and Plant Gene ResearchBeijing, China
- College of Life Sciences, Peking UniversityBeijing, China
| | - Jing-Chu Luo
- College of Life Sciences, Peking UniversityBeijing, China
| | - Chao-Xing He
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural SciencesBeijing, China
| | - San-Wen Huang
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural SciencesBeijing, China
| | - Xiao-Lan Zhang
- Department of Vegetable Sciences, Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, China Agricultural UniversityBeijing, China
| | - Zhi-Hong Xu
- State Key Laboratory of Protein and Plant Gene ResearchBeijing, China
- College of Life Sciences, Peking UniversityBeijing, China
| | - Shu-Nong Bai
- State Key Laboratory of Protein and Plant Gene ResearchBeijing, China
- College of Life Sciences, Peking UniversityBeijing, China
- National Center of Plant Gene ResearchBeijing, China
- *Correspondence: Shu-Nong Bai,
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Danisman S. TCP Transcription Factors at the Interface between Environmental Challenges and the Plant's Growth Responses. FRONTIERS IN PLANT SCIENCE 2016; 7:1930. [PMID: 28066483 PMCID: PMC5174091 DOI: 10.3389/fpls.2016.01930] [Citation(s) in RCA: 106] [Impact Index Per Article: 13.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/10/2016] [Accepted: 12/05/2016] [Indexed: 05/04/2023]
Abstract
Plants are sessile and as such their reactions to environmental challenges differ from those of mobile organisms. Many adaptions involve growth responses and hence, growth regulation is one of the most crucial biological processes for plant survival and fitness. The plant-specific TEOSINTE BRANCHED 1, CYCLOIDEA, PCF1 (TCP) transcription factor family is involved in plant development from cradle to grave, i.e., from seed germination throughout vegetative development until the formation of flowers and fruits. TCP transcription factors have an evolutionary conserved role as regulators in a variety of plant species, including orchids, tomatoes, peas, poplar, cotton, rice and the model plant Arabidopsis. Early TCP research focused on the regulatory functions of TCPs in the development of diverse organs via the cell cycle. Later research uncovered that TCP transcription factors are not static developmental regulators but crucial growth regulators that translate diverse endogenous and environmental signals into growth responses best fitted to ensure plant fitness and health. I will recapitulate the research on TCPs in this review focusing on two topics: the discovery of TCPs and the elucidation of their evolutionarily conserved roles across the plant kingdom, and the variety of signals, both endogenous (circadian clock, plant hormones) and environmental (pathogens, light, nutrients), TCPs respond to in the course of their developmental roles.
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Li Z, He C. Physalis floridana Cell Number Regulator1 encodes a cell membrane-anchored modulator of cell cycle and negatively controls fruit size. JOURNAL OF EXPERIMENTAL BOTANY 2015; 66:257-70. [PMID: 25305759 PMCID: PMC4265161 DOI: 10.1093/jxb/eru415] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
Physalis species show a significant variation in berry size; however, the underlying molecular basis is unknown. In this work, we showed that cell division difference in the ovaries might contribute to the ultimate berry size variation within Physalis species, and that mRNA abundance of Physalis floridana Cell Number Regulator1 (PfCNR1), the putative orthologue of the tomato fruit weight 2.2 (FW2.2), was negatively correlated with cell division in the ovaries. Moreover, heterochronic expression variation of the PfCNR1 genes in the ovaries concomitantly correlated with berry weight variation within Physalis species. In transgenic Physalis, multiple organ sizes could be negatively controlled by altering PfCNR1 levels, and cell division instead of cell expansion was primarily affected. PfCNR1 was shown to be anchored in the plasma membrane and to interact with PfAG2 (an AGAMOUS-like protein determining ovary identity). The expression of PfCYCD2;1, a putative orthologue of the mitosis-specific gene CyclinD2;1 in the cell cycle was negatively correlated with the PfCNR1 mRNA levels. PfAG2 was found to selectively bind to the CArG-box in the PfCYCD2;1 promoter and to repress PfCYCD2;1 expression, thus suggesting a PfAG2-mediated pathway for PfCNR1 to regulate cell division. The interaction of PfCNR1 with PfAG2 enhanced the repression of PfCYCD2;1 expression. The nuclear import of PfAG2 was essential in the proposed pathway. Our data provide new insights into the developmental pathways of a cell membrane-anchored protein that modulates cell division and governs organ size determination. This study also sheds light on the link between organ identity and organ growth in plants.
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Affiliation(s)
- Zhichao Li
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Nanxincun 20, Xiangshan, Haidian, 100093 Beijing, PR China University of Chinese Academy of Sciences, Yuquan Road 19, 100049 Beijing, PR China
| | - Chaoying He
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Nanxincun 20, Xiangshan, Haidian, 100093 Beijing, PR China
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Manchado-Rojo M, Weiss J, Egea-Cortines M. Validation of Aintegumenta as a gene to modify floral size in ornamental plants. PLANT BIOTECHNOLOGY JOURNAL 2014; 12:1053-65. [PMID: 24985495 DOI: 10.1111/pbi.12212] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/05/2014] [Revised: 05/06/2014] [Accepted: 05/09/2014] [Indexed: 05/09/2023]
Abstract
The gene AINTEGUMENTA (AtANT) is an APETALA2 transcription factor in Arabidopsis activating growth downstream of auxin signalling. Lateral organ size is positively correlated with ANT expression in Arabidopsis. We tested the use of AtANT as a tool to modify floral size in two different plants used as model organisms and ornamental crops, Petunia × hybrida and Antirrhinum majus. Petunia plants expressing PhANT RNAi showed a decrease in PhANT expression correlated with smaller petal limbs. In contrast Petunia plants overexpressing AtANT had larger petal limbs. Petal tube length was less affected in down-regulation of PhANT or overexpression of AtANT. Overexpression of AtANT in Antirrhinum caused increased flower size via increased petal limb width and tube length. Down-regulation of PhANT showed an effect on cell size while overexpression of AtANT in Petunia and Antirrhinum caused significant increases in cell expansion that could explain the differences in floral organ size. The endogenous expression levels of PhANT and AmANT tended to be higher in the limb than in the tube in both Antirrhinum and Petunia. AtANT overexpression caused significant AmANT up-regulation in Antirrhinum limbs but not of PhANT in Petunia, indicating differences in the regulatory network. The differential effect of AtANT on limb and tube in Petunia and Antirrhinum correspond to phenotypic differences observed in natural variation in the corresponding genus indicating a relation between the phenotypic space of a genus and the effect of modified ANT levels, validating ANT as a gene to modify floral size.
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Affiliation(s)
- María Manchado-Rojo
- Genetics, ETSIA, Instituto de Biotecnología Vegetal, Universidad Politécnica de Cartagena, Cartagena, Spain
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Mantegazza O, Gregis V, Chiara M, Selva C, Leo G, Horner DS, Kater MM. Gene coexpression patterns during early development of the native Arabidopsis reproductive meristem: novel candidate developmental regulators and patterns of functional redundancy. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2014; 79:861-77. [PMID: 24923650 DOI: 10.1111/tpj.12585] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/29/2013] [Revised: 05/13/2014] [Accepted: 06/04/2014] [Indexed: 05/16/2023]
Abstract
During very early stages of flower development in Arabidopsis thaliana, a series of key decisions are taken. Indeed, the position and the basic patterning of new flowers are determined in less than 4 days. Given that the scientific literature provides hard evidence for the function of only 10% of A. thaliana genes, we hypothesized that although many essential genes have already been identified, many poorly characterized genes are likely to be involved in floral patterning. In the current study, we use high-throughput sequencing to describe the transcriptome of the native inflorescence meristem, the floral meristem and the new flower immediately after the start of organ differentiation. We provide evidence that our experimental system is reliable and less affected by experimental artefacts than a widely used floral induction system. Furthermore, we show how these data can be used to identify candidate genes for functional studies, and to generate hypotheses of functional redundancies and regulatory interactions.
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Affiliation(s)
- Otho Mantegazza
- Dipartimento di Bioscienze, Università degli Studi di Milano, Via Celoria 26, 20133, Milano, Italy
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Karlova R, Chapman N, David K, Angenent GC, Seymour GB, de Maagd RA. Transcriptional control of fleshy fruit development and ripening. JOURNAL OF EXPERIMENTAL BOTANY 2014; 65:4527-41. [PMID: 25080453 DOI: 10.1093/jxb/eru316] [Citation(s) in RCA: 192] [Impact Index Per Article: 19.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
Fleshy fruits have evolved to be attractive to frugivores in order to enhance seed dispersal, and have become an indispensable part of the human diet. Here we review the recent advances in the understanding of transcriptional regulation of fleshy fruit development and ripening with a focus on tomato. While aspects of fruit development are probably conserved throughout the angiosperms, including the model plant Arabidopsis thaliana, it is shown that the likely orthologues of Arabidopsis genes have distinct functions in fleshy fruits. The model for the study of fleshy fruit development is tomato, because of the availability of single gene mutants and transgenic knock-down lines. In other species, our knowledge is often incomplete or absent. Tomato fruit size and shape are co-determined by transcription factors acting during formation of the ovary. Other transcription factors play a role in fruit chloroplast formation, and upon ripening impact quality aspects such as secondary metabolite content. In tomato, the transcription factors NON-RIPENING (NOR), COLORLESS NON-RIPENING (CNR), and RIPENING INHIBITOR (MADS-RIN) in concert with ethylene signalling regulate ripening, possibly in response to a developmental switch. Additional components include TOMATO AGAMOUS-LIKE1 (TAGL1), APETALA2a (AP2a), and FRUITFULL (FUL1 and FUL2). The links between this highly connected regulatory network and downstream effectors modulating colour, texture, and flavour are still relatively poorly understood. Intertwined with this network is post-transcriptional regulation by fruit-expressed microRNAs targeting several of these transcription factors. This important developmental process is also governed by changes in DNA methylation levels and possibly chromatin remodelling.
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Affiliation(s)
- Rumyana Karlova
- Molecular Plant Physiology, Utrecht University, 3584 CH Utrecht, The Netherlands Laboratory of Molecular Biology, Wageningen University, 6700 ET Wageningen, The Netherlands
| | - Natalie Chapman
- Plant and Crop Science Division, School of Biosciences, University of Nottingham, Loughborough LE12 5RD, UK
| | - Karine David
- University of Auckland, School of Biological Sciences, Auckland, New Zealand
| | - Gerco C Angenent
- Laboratory of Molecular Biology, Wageningen University, 6700 ET Wageningen, The Netherlands Business Unit Bioscience, Plant Research International, 6700 AP Wageningen, The Netherlands
| | - Graham B Seymour
- Plant and Crop Science Division, School of Biosciences, University of Nottingham, Loughborough LE12 5RD, UK
| | - Ruud A de Maagd
- Business Unit Bioscience, Plant Research International, 6700 AP Wageningen, The Netherlands Chair group Bioinformatics, Wageningen University, 6700 ET Wageningen, The Netherlands
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Wang L, He L, Li J, Zhao J, Li Z, He C. Regulatory change at Physalis Organ Size 1 correlates to natural variation in tomatillo reproductive organ size. Nat Commun 2014; 5:4271. [PMID: 24980282 DOI: 10.1038/ncomms5271] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2013] [Accepted: 06/02/2014] [Indexed: 01/08/2023] Open
Abstract
The genetic basis of size variation in the reproductive organs of tomatillo (Physalis philadelphica) is unknown. Here we report that the expression levels of the gene Physalis Organ Size 1 (POS1) are positively associated with size variation in P. philadelphica reproductive organs such flowers, berries and seeds. POS1 knockdown results in smaller flowers and berries with smaller cells as compared with their wild-type counterparts. Conversely, POS1 overexpression promotes organ size without increasing the cell number. The first introns of the POS1 alleles from the large, intermediate and small tomatillo groups contain one, two and three 37-bp repeats, respectively. Furthermore, our results show that copy variation of repeats in the first intron of POS1 alleles results in differential expression of this gene. Thus, co-variation in tomatillo reproductive organ sizes can be attributed to the novel regulatory variation in POS1.
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Affiliation(s)
- Li Wang
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Nanxincun 20, Xiangshan, 100093 Beijing, China
| | - Lingli He
- 1] State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Nanxincun 20, Xiangshan, 100093 Beijing, China [2] University of Chinese Academy of Sciences, Yuquan Road 19, 100049 Beijing, China
| | - Jing Li
- 1] State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Nanxincun 20, Xiangshan, 100093 Beijing, China [2] University of Chinese Academy of Sciences, Yuquan Road 19, 100049 Beijing, China
| | - Jing Zhao
- 1] State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Nanxincun 20, Xiangshan, 100093 Beijing, China [2] University of Chinese Academy of Sciences, Yuquan Road 19, 100049 Beijing, China
| | - Zhichao Li
- 1] State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Nanxincun 20, Xiangshan, 100093 Beijing, China [2] University of Chinese Academy of Sciences, Yuquan Road 19, 100049 Beijing, China
| | - Chaoying He
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Nanxincun 20, Xiangshan, 100093 Beijing, China
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Sablowski R, Carnier Dornelas M. Interplay between cell growth and cell cycle in plants. JOURNAL OF EXPERIMENTAL BOTANY 2014; 65:2703-14. [PMID: 24218325 DOI: 10.1093/jxb/ert354] [Citation(s) in RCA: 97] [Impact Index Per Article: 9.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
Abstract
The growth of organs and whole plants depends on both cell growth and cell-cycle progression, but the interaction between both processes is poorly understood. In plants, the balance between growth and cell-cycle progression requires coordinated regulation of four different processes: macromolecular synthesis (cytoplasmic growth), turgor-driven cell-wall extension, mitotic cycle, and endocycle. Potential feedbacks between these processes include a cell-size checkpoint operating before DNA synthesis and a link between DNA contents and maximum cell size. In addition, key intercellular signals and growth regulatory genes appear to target at the same time cell-cycle and cell-growth functions. For example, auxin, gibberellin, and brassinosteroid all have parallel links to cell-cycle progression (through S-phase Cyclin D-CDK and the anaphase-promoting complex) and cell-wall functions (through cell-wall extensibility or microtubule dynamics). Another intercellular signal mediated by microtubule dynamics is the mechanical stress caused by growth of interconnected cells. Superimposed on developmental controls, sugar signalling through the TOR pathway has recently emerged as a central control point linking cytoplasmic growth, cell-cycle and cell-wall functions. Recent progress in quantitative imaging and computational modelling will facilitate analysis of the multiple interconnections between plant cell growth and cell cycle and ultimately will be required for the predictive manipulation of plant growth.
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Affiliation(s)
- Robert Sablowski
- Cell and Developmental Biology Department, John Innes Centre, Norwich Research Park, Norwich, NR4 7UH, UK
| | - Marcelo Carnier Dornelas
- Instituto de Biologia, Departamento de Biologia Vegetal, Universidade Estadual de Campinas, Campinas, SP, CEP 13083-862, Brazil
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37
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Moyle LC, Jewell CP, Kostyun JL. Fertile approaches to dissecting mechanisms of premating and postmating prezygotic reproductive isolation. CURRENT OPINION IN PLANT BIOLOGY 2014; 18:16-23. [PMID: 24457825 DOI: 10.1016/j.pbi.2013.12.005] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/01/2013] [Revised: 12/13/2013] [Accepted: 12/20/2013] [Indexed: 05/11/2023]
Abstract
In sexually reproducing organisms, speciation involves the evolution of mechanisms that confer reproductive isolation between diverging lineages. Here we discuss recent research on the molecular basis of traits that mediate these barriers during premating and postmating, prezygotic stages of reproduction. In some cases, the specific loci underlying the expression of reproductive barriers are known, most notably when premating isolation is due to flower color or scent differences, and when postmating isolation is due to divergent gamete signaling. In addition, emerging work in molecular biology and genomics is revealing the mechanistic basis of prezygotic reproductive traits within species, and therefore establishing clear candidates for future work examining their potential role in reproductive isolation between species.
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Affiliation(s)
- Leonie C Moyle
- Department of Biology, Indiana University, Bloomington, IN 47405, USA.
| | - Cathleen P Jewell
- Department of Biology, Indiana University, Bloomington, IN 47405, USA
| | - Jamie L Kostyun
- Department of Biology, Indiana University, Bloomington, IN 47405, USA
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Trost G, Vi SL, Czesnick H, Lange P, Holton N, Giavalisco P, Zipfel C, Kappel C, Lenhard M. Arabidopsis poly(A) polymerase PAPS1 limits founder-cell recruitment to organ primordia and suppresses the salicylic acid-independent immune response downstream of EDS1/PAD4. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2014; 77:688-99. [PMID: 24372773 DOI: 10.1111/tpj.12421] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/07/2013] [Revised: 12/09/2013] [Accepted: 12/11/2013] [Indexed: 05/24/2023]
Abstract
Polyadenylation of pre-mRNAs by poly(A) polymerase (PAPS) is a critical process in eukaryotic gene expression. As found in vertebrates, plant genomes encode several isoforms of canonical nuclear PAPS enzymes. In Arabidopsis thaliana these isoforms are functionally specialized, with PAPS1 affecting both organ growth and immune response, at least in part by the preferential polyadenylation of subsets of pre-mRNAs. Here, we demonstrate that the opposite effects of PAPS1 on leaf and flower growth reflect the different identities of these organs, and identify a role for PAPS1 in the elusive connection between organ identity and growth patterns. The overgrowth of paps1 mutant petals is due to increased recruitment of founder cells into early organ primordia, and suggests that PAPS1 activity plays unique roles in influencing organ growth. By contrast, the leaf phenotype of paps1 mutants is dominated by a constitutive immune response that leads to increased resistance to the biotrophic oomycete Hyaloperonospora arabidopsidis and reflects activation of the salicylic acid-independent signalling pathway downstream of ENHANCED DISEASE SUSCEPTIBILITY1 (EDS1)/PHYTOALEXIN DEFICIENT4 (PAD4). These findings provide an insight into the developmental and physiological basis of the functional specialization amongst plant PAPS isoforms.
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Affiliation(s)
- Gerda Trost
- Institut für Biochemie und Biologie, Universität Potsdam, Karl-Liebknecht-Str. 24-25, 14476, Potsdam, Germany
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39
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Wellmer F, Graciet E, Riechmann JL. Specification of floral organs in Arabidopsis. JOURNAL OF EXPERIMENTAL BOTANY 2014; 65:1-9. [PMID: 24277279 DOI: 10.1093/jxb/ert385] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
Floral organs are specified by the activities of a small group of transcriptional regulators, the floral organ identity factors. Extensive genetic and molecular analyses have shown that these proteins act as master regulators of flower development, and function not only in organ identity determination but also during organ morphogenesis. Although it is now well established that these transcription factors act in higher order protein complexes in the regulation of transcription, the gene expression programmes controlled by them have remained largely elusive. Only recently, detailed insights into their functions have been obtained through the combination of a wide range of experimental methods, including transcriptomic and proteomic approaches. Here, we review the progress that has been made in the characterization of the floral organ identity factors from the main model plant Arabidopsis thaliana, and we discuss what is known about the processes acting downstream of these regulators. We further outline open questions, which we believe need to be addressed to obtain a more complete view of the molecular processes that govern floral organ development and specification.
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Affiliation(s)
- Frank Wellmer
- Smurfit Institute of Genetics, Trinity College Dublin, Dublin, Ireland
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40
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Reyes-Olalde JI, Zuñiga-Mayo VM, Chávez Montes RA, Marsch-Martínez N, de Folter S. Inside the gynoecium: at the carpel margin. TRENDS IN PLANT SCIENCE 2013; 18:644-55. [PMID: 24008116 DOI: 10.1016/j.tplants.2013.08.002] [Citation(s) in RCA: 78] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/06/2013] [Revised: 07/09/2013] [Accepted: 08/07/2013] [Indexed: 05/05/2023]
Abstract
The gynoecium, which is produced at the center of most flowers, is the female reproductive organ and consists of one or more carpels. The Arabidopsis gynoecium consists of two fused carpels. Its inner tissues possess meristematic characteristics and are called the carpel margin meristem (CMM), because they are located at the margins of the carpels and generate the 'marginal' tissues of the gynoecium (placenta, ovules, septum, transmitting tract, style, and stigma). A key question is which factors are guiding the correct development of all these tissues, many of which are essential for reproduction. Besides regulatory genes, hormones play an important part in the development of the marginal tissues, and recent reports have highlighted the role of cytokinins, as discussed in this review.
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Affiliation(s)
- J Irepan Reyes-Olalde
- Laboratorio Nacional de Genómica para la Biodiversidad (Langebio), Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional (CINVESTAV-IPN), Km. 9.6 Libramiento Norte, Carretera Irapuato-León, CP 36821 Irapuato, Gto., México
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41
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Ó’Maoiléidigh DS, Wuest SE, Rae L, Raganelli A, Ryan PT, Kwaśniewska K, Das P, Lohan AJ, Loftus B, Graciet E, Wellmer F. Control of reproductive floral organ identity specification in Arabidopsis by the C function regulator AGAMOUS. THE PLANT CELL 2013; 25:2482-503. [PMID: 23821642 PMCID: PMC3753378 DOI: 10.1105/tpc.113.113209] [Citation(s) in RCA: 71] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/29/2013] [Revised: 06/05/2013] [Accepted: 06/17/2013] [Indexed: 05/18/2023]
Abstract
The floral organ identity factor AGAMOUS (AG) is a key regulator of Arabidopsis thaliana flower development, where it is involved in the formation of the reproductive floral organs as well as in the control of meristem determinacy. To obtain insights into how AG specifies organ fate, we determined the genes and processes acting downstream of this C function regulator during early flower development and distinguished between direct and indirect effects. To this end, we combined genome-wide localization studies, gene perturbation experiments, and computational analyses. Our results demonstrate that AG controls flower development to a large extent by controlling the expression of other genes with regulatory functions, which are involved in mediating a plethora of different developmental processes. One aspect of this function is the suppression of the leaf development program in emerging floral primordia. Using trichome initiation as an example, we demonstrate that AG inhibits an important aspect of leaf development through the direct control of key regulatory genes. A comparison of the gene expression programs controlled by AG and the B function regulators APETALA3 and PISTILLATA, respectively, showed that while they control many developmental processes in conjunction, they also have marked antagonistic, as well as independent activities.
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Affiliation(s)
| | - Samuel E. Wuest
- Smurfit Institute of Genetics, Trinity College Dublin, Dublin 2, Ireland
| | - Liina Rae
- Smurfit Institute of Genetics, Trinity College Dublin, Dublin 2, Ireland
| | - Andrea Raganelli
- Smurfit Institute of Genetics, Trinity College Dublin, Dublin 2, Ireland
| | - Patrick T. Ryan
- Smurfit Institute of Genetics, Trinity College Dublin, Dublin 2, Ireland
| | - Kamila Kwaśniewska
- Smurfit Institute of Genetics, Trinity College Dublin, Dublin 2, Ireland
| | - Pradeep Das
- École Normale Supérieure, 69364 Lyon, cedex 07, France
| | - Amanda J. Lohan
- Conway Institute, University College Dublin, Dublin 4, Ireland
| | - Brendan Loftus
- Conway Institute, University College Dublin, Dublin 4, Ireland
| | - Emmanuelle Graciet
- Smurfit Institute of Genetics, Trinity College Dublin, Dublin 2, Ireland
- Address correspondence to
| | - Frank Wellmer
- Smurfit Institute of Genetics, Trinity College Dublin, Dublin 2, Ireland
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Burko Y, Shleizer-Burko S, Yanai O, Shwartz I, Zelnik ID, Jacob-Hirsch J, Kela I, Eshed-Williams L, Ori N. A role for APETALA1/fruitfull transcription factors in tomato leaf development. THE PLANT CELL 2013; 25:2070-83. [PMID: 23771895 PMCID: PMC3723613 DOI: 10.1105/tpc.113.113035] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
Abstract
Flexible maturation rates underlie part of the diversity of leaf shape, and tomato (Solanum lycopersicum) leaves are compound due to prolonged organogenic activity of the leaf margin. The CINCINNATA-teosinte branched1, cycloidea, PCF (CIN-TCP) transcription factor lanceolate (LA) restricts this organogenic activity and promotes maturation. Here, we show that tomato APETALA1/fruitfull (AP1/FUL) MADS box genes are involved in tomato leaf development and are repressed by LA. AP1/FUL expression is correlated negatively with LA activity and positively with the organogenic activity of the leaf margin. LA binds to the promoters of the AP1/FUL genes MBP20 and TM4. Overexpression of MBP20 suppressed the simple-leaf phenotype resulting from upregulation of LA activity or from downregulation of class I knotted like homeobox (KNOXI) activity. Overexpression of a dominant-negative form of MBP20 led to leaf simplification and partly suppressed the increased leaf complexity of plants with reduced LA activity or increased KNOXI activity. Tomato plants overexpressing miR319, a negative regulator of several CIN-TCP genes including LA, flower with fewer leaves via an SFT-dependent pathway, suggesting that miR319-sensitive CIN-TCPs delay flowering in tomato. These results identify a role for AP1/FUL genes in vegetative development and show that leaf and plant maturation are regulated via partially independent mechanisms.
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Affiliation(s)
- Yogev Burko
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture and The Otto Warburg Minerva Center for Agricultural Biotechnology, Hebrew University, Rehovot 76100, Israel
| | - Sharona Shleizer-Burko
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture and The Otto Warburg Minerva Center for Agricultural Biotechnology, Hebrew University, Rehovot 76100, Israel
| | - Osnat Yanai
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture and The Otto Warburg Minerva Center for Agricultural Biotechnology, Hebrew University, Rehovot 76100, Israel
| | - Ido Shwartz
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture and The Otto Warburg Minerva Center for Agricultural Biotechnology, Hebrew University, Rehovot 76100, Israel
| | - Iris Daphne Zelnik
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture and The Otto Warburg Minerva Center for Agricultural Biotechnology, Hebrew University, Rehovot 76100, Israel
| | - Jasmine Jacob-Hirsch
- Cancer Research Center, Chaim Sheba Medical Center, Tel Hashomer 52621, Ramat Gan, Israel
| | - Itai Kela
- Physics of Complex Systems, Weizmann Institute of Science, Rehovot 76100, Israel
| | - Leor Eshed-Williams
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture and The Otto Warburg Minerva Center for Agricultural Biotechnology, Hebrew University, Rehovot 76100, Israel
| | - Naomi Ori
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture and The Otto Warburg Minerva Center for Agricultural Biotechnology, Hebrew University, Rehovot 76100, Israel
- Address correspondence to
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Abstract
Flowers exhibit amazing morphological diversity in many traits, including their size. In addition to interspecific flower size differences, many species maintain significant variation in flower size within and among populations. Flower size variation can contribute to reproductive isolation of species and thus has clear evolutionary consequences. In this review we integrate information on flower size variation from both evolutionary and developmental biology perspectives. We examine the role of flower size in the context of mating system evolution. In addition, we describe what is currently known about the genetic basis of flower size based on quantitative trait locus (QTL) mapping in several different plant species and molecular genetic studies in model plants, primarily Arabidopsis thaliana. Work in Arabidopsis suggests that many independent pathways regulate floral organ growth via effects on cell proliferation and/or cell expansion.
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Affiliation(s)
- Beth A Krizek
- Department of Biological Sciences, University of South Carolina, Columbia, SC 29208, USA.
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Bendahmane M, Dubois A, Raymond O, Bris ML. Genetics and genomics of flower initiation and development in roses. JOURNAL OF EXPERIMENTAL BOTANY 2013; 64:847-57. [PMID: 23364936 PMCID: PMC3594942 DOI: 10.1093/jxb/ers387] [Citation(s) in RCA: 77] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
Roses hold high symbolic value and great cultural importance in different societies throughout human history. They are widely used as garden ornamental plants, as cut flowers, and for the production of essential oils for the perfume and cosmetic industries. Domestication of roses has a long and complex history, and the rose species have been hybridized across vast geographic areas such as Europe, Asia, and the Middle East. The domestication processes selected several flower characters affecting floral quality, such as recurrent flowering, double flowers, petal colours, and fragrance. The molecular and genetic events that determine some of these flower characters cannot be studied using model species such as Arabidopsis thaliana, or at least only in a limited manner. In this review, we comment on the recent development of genetic, genomic, and transcriptomic tools for roses, and then focus on recent advances that have helped unravel the molecular mechanisms underlying several rose floral traits.
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Affiliation(s)
- Mohammed Bendahmane
- Reproduction et Développement des Plantes UMR INRA-CNRS-Université Lyon 1-ENSL, IFR128 BioSciences-Gerland Lyon sud, Ecole Normale Supérieure, 46 allée d'Italie, Lyon Cedex 07, France.
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Smaczniak C, Immink RGH, Angenent GC, Kaufmann K. Developmental and evolutionary diversity of plant MADS-domain factors: insights from recent studies. Development 2012; 139:3081-98. [PMID: 22872082 DOI: 10.1242/dev.074674] [Citation(s) in RCA: 340] [Impact Index Per Article: 28.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Members of the MADS-box transcription factor family play essential roles in almost every developmental process in plants. Many MADS-box genes have conserved functions across the flowering plants, but some have acquired novel functions in specific species during evolution. The analyses of MADS-domain protein interactions and target genes have provided new insights into their molecular functions. Here, we review recent findings on MADS-box gene functions in Arabidopsis and discuss the evolutionary history and functional diversification of this gene family in plants. We also discuss possible mechanisms of action of MADS-domain proteins based on their interactions with chromatin-associated factors and other transcriptional regulators.
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Affiliation(s)
- Cezary Smaczniak
- Laboratory of Molecular Biology, Wageningen University, 6708PB Wageningen, The Netherlands
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Manchado-Rojo M, Delgado-Benarroch L, Roca MJ, Weiss J, Egea-Cortines M. Quantitative levels of Deficiens and Globosa during late petal development show a complex transcriptional network topology of B function. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2012; 72:294-307. [PMID: 22708513 DOI: 10.1111/j.1365-313x.2012.05080.x] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
Abstract
The transcriptional network topology of B function in Antirrhinum, required for petal and stamen development, is thought to rely on initial activation of transcription of DEFICIENS (DEF) and GLOBOSA (GLO), followed by a positive autoregulatory loop maintaining gene expression levels. Here, we show that the mutant compacta (co), whose vegetative growth and petal size are affected, plays a role in B function. Late events in petal morphogenesis such as development of conical cell area and scent emissions were reduced in co and def (nicotianoides) (def (nic) ), and absent in co def (nic) double mutants, suggesting a role for CO in petal identity. Expression of DEF was down-regulated in co but surprisingly GLO was not affected. We investigated the levels of DEF and GLO at late stages of petal development in the co, def (nic) and glo-1 mutants, and established a reliable transformation protocol that yielded RNAi-DEF lines. We show that the threshold levels of DEF or GLO required to obtain petal tissue are approximately 11% of wild-type. The relationship between DEF and GLO transcripts is not equal or constant and changes during development. Furthermore, down-regulation of DEF or GLO does not cause parallel down-regulation of the partner. Our results demonstrate that, at late stages of petal development, the B function transcriptional network topology is not based on positive autoregulation, and has additional components of transcriptional maintenance. Our results suggest changes in network topology that may allow changes in protein complexes that would explain the fact that not all petal traits appear early in development.
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Affiliation(s)
- María Manchado-Rojo
- Department of Genetics, ETSIA, Instituto de Biotecnología Vegetal, Universidad Politécnica de Cartagena, Paseo Alfonso XIII 48, 30203 Cartagena, Spain
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Kapazoglou A, Engineer C, Drosou V, Kalloniati C, Tani E, Tsaballa A, Kouri ED, Ganopoulos I, Flemetakis E, Tsaftaris AS. The study of two barley type I-like MADS-box genes as potential targets of epigenetic regulation during seed development. BMC PLANT BIOLOGY 2012; 12:166. [PMID: 22985436 PMCID: PMC3499179 DOI: 10.1186/1471-2229-12-166] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/10/2012] [Accepted: 08/30/2012] [Indexed: 05/09/2023]
Abstract
BACKGROUND MADS-box genes constitute a large family of transcription factors functioning as key regulators of many processes during plant vegetative and reproductive development. Type II MADS-box genes have been intensively investigated and are mostly involved in vegetative and flowering development. A growing number of studies of Type I MADS-box genes in Arabidopsis, have assigned crucial roles for these genes in gamete and seed development and have demonstrated that a number of Type I MADS-box genes are epigenetically regulated by DNA methylation and histone modifications. However, reports on agronomically important cereals such as barley and wheat are scarce. RESULTS Here we report the identification and characterization of two Type I-like MADS-box genes, from barley (Hordeum vulgare), a monocot cereal crop of high agronomic importance. Protein sequence and phylogenetic analysis showed that the putative proteins are related to Type I MADS-box proteins, and classified them in a distinct cereal clade. Significant differences in gene expression among seed developmental stages and between barley cultivars with varying seed size were revealed for both genes. One of these genes was shown to be induced by the seed development- and stress-related hormones ABA and JA whereas in situ hybridizations localized the other gene to specific endosperm sub-compartments. The genomic organization of the latter has high conservation with the cereal Type I-like MADS-box homologues and the chromosomal position of both genes is close to markers associated with seed quality traits. DNA methylation differences are present in the upstream and downstream regulatory regions of the barley Type I-like MADS-box genes in two different developmental stages and in response to ABA treatment which may be associated with gene expression differences. CONCLUSIONS Two barley MADS-box genes were studied that are related to Type I MADS-box genes. Differential expression in different seed developmental stages as well as in barley cultivars with different seed size was evidenced for both genes. The two barley Type I MADS-box genes were found to be induced by ABA and JA. DNA methylation differences in different seed developmental stages and after exogenous application of ABA is suggestive of epigenetic regulation of gene expression. The study of barley Type I-like MADS-box genes extends our investigations of gene regulation during endosperm and seed development in a monocot crop like barley.
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Affiliation(s)
- Aliki Kapazoglou
- Institute of Agrobiotechnology (INA), CERTH, Thermi-Thessaloniki, GR-57001, Greece
| | - Cawas Engineer
- Institute of Agrobiotechnology (INA), CERTH, Thermi-Thessaloniki, GR-57001, Greece
| | - Vicky Drosou
- Institute of Agrobiotechnology (INA), CERTH, Thermi-Thessaloniki, GR-57001, Greece
| | - Chrysanthi Kalloniati
- Department of Agricultural Biotechnology, Agricultural University of Athens, Iera Odos 75, Athens, GR-11855, Greece
| | - Eleni Tani
- Institute of Agrobiotechnology (INA), CERTH, Thermi-Thessaloniki, GR-57001, Greece
| | - Aphrodite Tsaballa
- Department of Genetics and Plant Breeding, Aristotle University of Thessaloniki, Thessaloniki, GR-54124, Greece
| | - Evangelia D Kouri
- Department of Agricultural Biotechnology, Agricultural University of Athens, Iera Odos 75, Athens, GR-11855, Greece
| | - Ioannis Ganopoulos
- Department of Genetics and Plant Breeding, Aristotle University of Thessaloniki, Thessaloniki, GR-54124, Greece
| | - Emmanouil Flemetakis
- Department of Agricultural Biotechnology, Agricultural University of Athens, Iera Odos 75, Athens, GR-11855, Greece
| | - Athanasios S Tsaftaris
- Institute of Agrobiotechnology (INA), CERTH, Thermi-Thessaloniki, GR-57001, Greece
- Department of Genetics and Plant Breeding, Aristotle University of Thessaloniki, Thessaloniki, GR-54124, Greece
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Davies KM, Albert NW, Schwinn KE. From landing lights to mimicry: the molecular regulation of flower colouration and mechanisms for pigmentation patterning. FUNCTIONAL PLANT BIOLOGY : FPB 2012; 39:619-638. [PMID: 32480814 DOI: 10.1071/fp12195] [Citation(s) in RCA: 169] [Impact Index Per Article: 14.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/02/2012] [Accepted: 07/03/2012] [Indexed: 05/22/2023]
Abstract
Flower colour is a key component for plant signaling to pollinators and a staggering variety of colour variations are found in nature. Patterning of flower colour, such as pigment spots or stripes, is common and is important in promoting pollination success. Developmentally programmed pigmentation patterns are of interest with respect to the evolution of specialised plant-pollinator associations and as models for dissecting regulatory signaling in plants. This article reviews the occurrence and function of flower colour patterns, as well as the molecular genetics of anthocyanin pigmentation regulation. The transcription factors controlling anthocyanin biosynthesis have been characterised for many species and an 'MBW' regulatory complex of R2R3MYB, bHLH and WD-Repeat proteins is of central importance. In particular, R2R3MYBs are key determinants of pigmentation intensity and patterning in plants. Progress is now being made on how environmental or developmental signal pathways may in turn control the production of the MBW components. Furthermore, additional regulatory proteins that interact with the MBW activation complex are being identified, including a range of proteins that repress complex formation or action, either directly or indirectly. This review discusses some of the recent data on the regulatory factors and presents models of how patterns may be determined.
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Affiliation(s)
- Kevin M Davies
- The New Zealand Institute for Plant and Food Research Ltd, Private Bag 11600, Palmerston North, New Zealand
| | - Nick W Albert
- The New Zealand Institute for Plant and Food Research Ltd, Private Bag 11600, Palmerston North, New Zealand
| | - Kathy E Schwinn
- The New Zealand Institute for Plant and Food Research Ltd, Private Bag 11600, Palmerston North, New Zealand
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Mounet F, Moing A, Kowalczyk M, Rohrmann J, Petit J, Garcia V, Maucourt M, Yano K, Deborde C, Aoki K, Bergès H, Granell A, Fernie AR, Bellini C, Rothan C, Lemaire-Chamley M. Down-regulation of a single auxin efflux transport protein in tomato induces precocious fruit development. JOURNAL OF EXPERIMENTAL BOTANY 2012; 63:4901-17. [PMID: 22844095 PMCID: PMC3427993 DOI: 10.1093/jxb/ers167] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
The PIN-FORMED (PIN) auxin efflux transport protein family has been well characterized in the model plant Arabidopsis thaliana, where these proteins are crucial for auxin regulation of various aspects of plant development. Recent evidence indicates that PIN proteins may play a role in fruit set and early fruit development in tomato (Solanum lycopersicum), but functional analyses of PIN-silenced plants failed to corroborate this hypothesis. Here it is demonstrated that silencing specifically the tomato SlPIN4 gene, which is predominantly expressed in tomato flower bud and young developing fruit, leads to parthenocarpic fruits due to precocious fruit development before fertilization. This phenotype was associated with only slight modifications of auxin homeostasis at early stages of flower bud development and with minor alterations of ARF and Aux/IAA gene expression. However, microarray transcriptome analysis and large-scale quantitative RT-PCR profiling of transcription factors in developing flower bud and fruit highlighted differentially expressed regulatory genes, which are potential targets for auxin control of fruit set and development in tomato. In conclusion, this work provides clear evidence that the tomato PIN protein SlPIN4 plays a major role in auxin regulation of tomato fruit set, possibly by preventing precocious fruit development in the absence of pollination, and further gives new insights into the target genes involved in fruit set.
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Affiliation(s)
- Fabien Mounet
- INRA, UMR 1332 de Biologie du fruit et PathologieF-33140 Villenave d’OrnonFrance
- Université de Bordeaux, UMR 1332 de Biologie du fruit et PathologieF-33140 Villenave d’OrnonFrance
- Present address: UMR 5546, Laboratoire de Recherche en Sciences VégétalesF-31326 Castanet TolosanFrance
| | - Annick Moing
- INRA, UMR 1332 de Biologie du fruit et PathologieF-33140 Villenave d’OrnonFrance
- Université de Bordeaux, UMR 1332 de Biologie du fruit et PathologieF-33140 Villenave d’OrnonFrance
- Plateforme Métabolome du Centre de Génomique Fonctionnelle Bordeaux, IBVM, Centre INRA de BordeauxF-33140Villenave d’OrnonFrance
| | - Mariusz Kowalczyk
- Umeå Plant Science Centre, Department of Plant Physiology, Umeå UniversitySE-90187 UmeåSweden
- Present address: Institute of Soil Science and Plant Cultivation, Department of Biochemistry and Crop Quality24100 PulawyPoland
| | - Johannes Rohrmann
- Max-Planck Institute for Molecular Plant PhysiologyAm Mühlenberg 1, D-14476 Potsdam-GolmGermany
| | - Johann Petit
- INRA, UMR 1332 de Biologie du fruit et PathologieF-33140 Villenave d’OrnonFrance
- Université de Bordeaux, UMR 1332 de Biologie du fruit et PathologieF-33140 Villenave d’OrnonFrance
| | - Virginie Garcia
- INRA, UMR 1332 de Biologie du fruit et PathologieF-33140 Villenave d’OrnonFrance
- Université de Bordeaux, UMR 1332 de Biologie du fruit et PathologieF-33140 Villenave d’OrnonFrance
| | - Mickaël Maucourt
- INRA, UMR 1332 de Biologie du fruit et PathologieF-33140 Villenave d’OrnonFrance
- Université de Bordeaux, UMR 1332 de Biologie du fruit et PathologieF-33140 Villenave d’OrnonFrance
- Plateforme Métabolome du Centre de Génomique Fonctionnelle Bordeaux, IBVM, Centre INRA de BordeauxF-33140Villenave d’OrnonFrance
| | - Kentaro Yano
- Meiji University1-1-1 Higashi-Mita, Tama-Ku, Kawasaki, 214-8571Japan
| | - Catherine Deborde
- INRA, UMR 1332 de Biologie du fruit et PathologieF-33140 Villenave d’OrnonFrance
- Université de Bordeaux, UMR 1332 de Biologie du fruit et PathologieF-33140 Villenave d’OrnonFrance
- Plateforme Métabolome du Centre de Génomique Fonctionnelle Bordeaux, IBVM, Centre INRA de BordeauxF-33140Villenave d’OrnonFrance
| | - Koh Aoki
- Kazusa DNA Research Institute2-6-7 Kazusa-Kamatari, KisarazuJapan
- Present address: Osaka Prefecture University, Environmental and Life Sciences, 1-1 Gakuen-cho, Naka-ku, SakaiOsaka 599-8531Japan
| | - Hélène Bergès
- INRA-Centre National de Ressources Génomiques VégétalesF-31326 Castanet TolosanFrance
| | - Antonio Granell
- Instituto de Biología Molecular y Celular de Plantas, Universidad Politécnica de Valencia-CSIC46022 ValenciaSpain
| | - Alisdair R. Fernie
- Max-Planck Institute for Molecular Plant PhysiologyAm Mühlenberg 1, D-14476 Potsdam-GolmGermany
| | - Catherine Bellini
- Umeå Plant Science Centre, Department of Plant Physiology, Umeå UniversitySE-90187 UmeåSweden
- Institut Jean-Pierre Bourgin, UMR1318-INRA-AgroParisTech, INRA Centre of Versailles-GrignonF-78026 Versailles cedexFrance
| | - Christophe Rothan
- INRA, UMR 1332 de Biologie du fruit et PathologieF-33140 Villenave d’OrnonFrance
- Université de Bordeaux, UMR 1332 de Biologie du fruit et PathologieF-33140 Villenave d’OrnonFrance
| | - Martine Lemaire-Chamley
- INRA, UMR 1332 de Biologie du fruit et PathologieF-33140 Villenave d’OrnonFrance
- Université de Bordeaux, UMR 1332 de Biologie du fruit et PathologieF-33140 Villenave d’OrnonFrance
- To whom correspondence should be addressed. E-mail:
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Sreenivasulu N, Schnurbusch T. A genetic playground for enhancing grain number in cereals. TRENDS IN PLANT SCIENCE 2012; 17:91-101. [PMID: 22197176 DOI: 10.1016/j.tplants.2011.11.003] [Citation(s) in RCA: 113] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/12/2011] [Revised: 11/03/2011] [Accepted: 11/14/2011] [Indexed: 05/18/2023]
Abstract
Improving the yield stability of cereal crops with a view to bolstering global food security is an important priority. The components of final grain number per plant at harvest are determined by fertile spikes per plant, number of fertile spikelets per spike and number of grains per spikelet. In this review article, we focus on the genetic factors of floral development and inflorescence architecture known to influence grain number and provide a broad overview of genes and genetic pathways that potentially can be manipulated to increase the yield of cereal crops, in particular wheat (Triticum aestivum) and barley (Hordeum vulgare). In addition, we discuss the outcome of multidisciplinary genomics knowledge to identify potential gene targets to develop conceptual ideotypes to meet the future demand.
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Affiliation(s)
- Nese Sreenivasulu
- Leibniz-Institute of Plant Genetics and Crop Plant Research (IPK), Interdisciplinary Center for Crop Plant Research (IZN) Research Group Stress Genomics, Corrensstr. 3, 06466 Gatersleben, Germany
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