MIKCC-type MADS-box genes in Rosa chinensis: the remarkable expansion of ABCDE model genes and their roles in floral organogenesis

Liu, Jinyi; Fu, Xiaodong; Dong, Yuwei; Lü, Jun; Min, Ren; Zhou, Ningning; Wang, Chang Quan

doi:10.1038/s41438-018-0031-4

Cited by 51 publications

(46 citation statements)

References 77 publications

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“…RR047A, TaKaRa, Dalian, China) following the protocol from the manufacturer. For qRT-PCR, RcGADPH was used as the reference gene, as described previously (Liu et al, 2018). Three biological replicates and three technical replicates were used for each experiment.…”

Section: Gene Expression Analysis By Qrt-pcrmentioning

confidence: 99%

RcMYB84 and RcMYB123 mediate jasmonate‐induced defense responses against Botrytis cinerea in rose (Rosa chinensis)

et al. 2020

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SUMMARY Jasmonates (JAs) are important for pathogen resistance in many plants, but the role of these phytohormones in fungal pathogen resistance in rose is unclear. Here, we determined that exogenous application of methyl jasmonate increased resistance to the important fungal pathogen Botrytis cinerea in Rosa chinensis ‘Old blush’, whereas silencing the JA biosynthetic pathway gene Allene Oxide Synthase (AOS) and JA co‐receptor gene CORONATINE INSENSITIVE 1 (COI1) suppressed this response. Transcriptome profiling identified various MYB transcription factor genes that responded to both JA and B. cinerea treatment. Silencing Ri‐RcMYB84/Ri‐RcMYB123 increased the susceptibility of rose plants to B. cinerea and inhibited the protective effects of JA treatment, confirming the crucial roles of these genes in JA‐induced responses to B. cinerea. JAZ1, a key repressor of JA signaling, directly interacts with RcMYB84 and RcMYB123 to deplete their free pools. The JAZ1‐RcMYB84 complex binds to the RcMYB123 promoter via the CAACTG motifs to block its transcription. Upon JA treatment, the expression of RcMYB123 is de‐repressed, and free forms of RcMYB84 and RcMYB123 are released due to JAZ1 degradation, thereby activating the defense responses of plants to B. cinerea. These findings shed light on the molecular mechanisms underlying JA‐induced pathogen resistance in roses.

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Section: Gene Expression Analysis By Qrt-pcrmentioning

confidence: 99%

RcMYB84 and RcMYB123 mediate jasmonate‐induced defense responses against Botrytis cinerea in rose (Rosa chinensis)

et al. 2020

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“…Because of its importance in plant floral organ and fruit development, MADS-box gene family has gained increasing attention from the scientific community. To-date, MADS-box genes have been systematically characterized in more than 34 different plant species [ 11 , 22 , 39 – 42 ]. Through searching against the released genome database of N. nucifera ‘China Antique’ [ 43 ], a total of 44 MADS-box genes were determined, whereas only 40 MADS-box genes were annotated in the genome of another wild strain of sacred lotus [ 44 ].…”

Section: Discussionmentioning

confidence: 99%

“…Since the identification of the first key transcription factors (TFs) in floral organogenesis [ 4 ], a series of TFs controlling floral organ specification have been characterized, which have resulted in the well-known classic ‘ABC/DE’ model [ 5 – 11 ]. Different combination of A, B, C, and E classes genes determines the floral organ specification, such as sepals, petal, stamen, carpel, and ovule controlled by A + E, A + B + E, B + C + E, C + E, and D + E, respectively [ 12 – 15 ].…”

Section: Introductionmentioning

confidence: 99%

“…Because of their important roles in plant development, especially in floral organogenesis, characterizing the functions of different MADS-box genes has been one of the hotspots in plant biology community. To achieve this, systematic genome-wide analysis of MADS-box gene family is necessary, which have been widely conducted in many plants, such as Arabidopsis [ 22 ], rice [ 39 ], Brassica rapa [ 40 ], orchid [ 41 ], grapevine [ 42 ], and Rosa chinensis [ 11 ]. For lotus, the genome has recently been sequenced and released [ 43 , 44 ], which facilitates further study on function characterization of gene or gene family.…”

Section: Introductionmentioning

confidence: 99%

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Genome-wide identification of MADS-box gene family in sacred lotus (Nelumbo nucifera) identifies a SEPALLATA homolog gene involved in floral development

et al. 2020

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Background Sacred lotus (Nelumbo nucifera) is a vital perennial aquatic ornamental plant. Its flower shape determines the horticultural and ornamental values. However, the mechanisms underlying lotus flower development are still elusive. MADS-box transcription factors are crucial in various features of plant development, especially in floral organogenesis and specification. It is still unknown how the MADS-box transcription factors regulate the floral organogenesis in lotus. Results To obtain a comprehensive insight into the functions of MADS-box genes in sacred lotus flower development, we systematically characterized members of this gene family based on the available genome information. A total of 44 MADS-box genes were identified, of which 16 type I and 28 type II genes were categorized based on the phylogenetic analysis. Furthermore, the structure of MADS-box genes and their expressional patterns were also systematically analyzed. Additionally, subcellular localization analysis showed that they are mainly localized in the nucleus, of which a SEPALLATA3 (SEP3) homolog NnMADS14 was proven to be involved in the floral organogenesis. Conclusion These results provide some fundamental information about the MADS-box gene family and their functions, which might be helpful in not only understanding the mechanisms of floral organogenesis but also breeding of high ornamental value cultivars in lotus.

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“…To the best of our knowledge, MIKC-type MADS-box genes include most ABCDE-type genes that play pivotal roles in ower development regulation and the determination of oral organ identity [89,90]. Many MIKC-type MADS-box genes have been identi ed in different species [10,[91][92][93].…”

Section: Discussionmentioning

confidence: 99%

Gene co-expression analysis and tissue-specific gene identification in Liriodendron chinense via hybrid sequencing

Tu¹,

Shen²,

Wen³

et al. 2020

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Background Liriodendron chinense (Hemsl.) Sarg. is an economically and ecologically important deciduous tree species that has been studied for many years. Although the complete L. chinense genome has been sequenced, the gene co-expression modules and tissue-specific genes of L. chinense remain unknown. Results Here, we used the bracts, petals, sepals, stamens, pistils, leaves, and the shoot apex of L. chinense as materials and analysed their gene co-expression modules and tissue-specific genes via hybrid sequencing. We identified 3,032 DEGs between the floral and vegetative tissues and 2,126 tissue-specific genes. By using WGCNA analysis, we identified 13 gene co-expression modules, and KEGG pathway enrichment analysis revealed that tissue-specific genes and genes from different modules were enriched in different pathways. Genes associated with plant defence were highly expressed in the bracts, genes participating in plant hormone signal transduction were highly expressed in the shoot apex, and genes participating in photosynthesis were highly expressed in the leaves, petals and sepals. Moreover, we identified 10 MIKC-type MADS-box genes that were classified as member of the AP3/PI, SVP, SEP, AG/SHP/STK, AGL12, SOC1 and TM8 subfamily. Phylogenetic analysis showed that the expression profiles of these ten genes were consistent with those reported in Arabidopsis and Populus , indicating that these genes are highly conserved evolutionarily and related to floral and vegetative tissue development. The small number of MIKC-type MADS-box genes in L. chinense was probably owing to its incomplete genome annotation. Conclusions In this work, we provided a reference transcriptome for L. chinense research by using hybrid sequencing. We identified 2,126 tissue-specific genes and 3,032 DEGs that contributed greatly to the functional differences between vegetative organs and floral organs. By using WGCNA analysis, 13 gene co-expression modules and 52 hub genes from six co-expression modules of interest were identified. Moreover, we identified 10 MIKC-type MADS-box genes that might be related to the development and growth regulation of floral and vegetative organs. These findings will improve our understanding of gene co-expression, tissue specific genes and flower development model of L. chinense .

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MIKCC-type MADS-box genes in Rosa chinensis: the remarkable expansion of ABCDE model genes and their roles in floral organogenesis

Cited by 51 publications

References 77 publications

RcMYB84 and RcMYB123 mediate jasmonate‐induced defense responses against Botrytis cinerea in rose (Rosa chinensis)

RcMYB84 and RcMYB123 mediate jasmonate‐induced defense responses against Botrytis cinerea in rose (Rosa chinensis)

Genome-wide identification of MADS-box gene family in sacred lotus (Nelumbo nucifera) identifies a SEPALLATA homolog gene involved in floral development

Gene co-expression analysis and tissue-specific gene identification in Liriodendron chinense via hybrid sequencing

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