Diversity and Expression Patterns of MADS-Box Genes in Gnetum luofuense—Implications for Functional Diversity and Evolution

Hou, Chen; Li, Lingfei; Liu, Zhiming; Su, Yingjuan; Wan, Tao

doi:10.1007/s12042-019-09247-x

Cited by 12 publications

(23 citation statements)

References 59 publications

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“…Various transcription factors and their functions MADS-box genes Type I MADS-box genes are involved in the development of female gametophytes, embryos and seeds [55,56]. However, the functions of type I MADS-box genes have been constantly neglected in gymnosperms, probably because type I MADS genes are considerably less numerous in gymnosperms than in angiosperms [25,57]. To date, 11 type I MADS-box genes have been identi ed in G.…”

Section: Metabolism and Secondary Metabolitesmentioning

confidence: 99%

“…luofuense 25 , but their functions have not been investigated. In the present study, 27 type I MADS-box TFs were identi ed in G. luofuense seeds, and gene TnS000803113g11 was differentially expressed between immature and mature seeds, indicating that type I MADS-box genes may be involved in the seed ripening of G. luofuense but it requires further validation.…”

Section: Metabolism and Secondary Metabolitesmentioning

confidence: 99%

“…Compared to type I MADS-box genes, the functions of type II MADS-box genes in Gnetum reproductive organ development have received much more attention [23,25,[57][58][59][60][61]. Thus far, 38 type II genes have been identi ed in G. luofuense, of which TM8-like genes constitute almost half of the identi ed gene numbers [25]. In mature seeds of G. luofuense, the type II AG-like MADS-box gene TnS000064931g01 was strongly expressed, the AGL6-like gene TnS000229425g02 was weakly expressed, and two TM8-like genes TnS000061251g01 and TnS000980857g01 were moderately expressed [25].…”

Section: Metabolism and Secondary Metabolitesmentioning

confidence: 99%

“…Thus far, 38 type II genes have been identi ed in G. luofuense, of which TM8-like genes constitute almost half of the identi ed gene numbers [25]. In mature seeds of G. luofuense, the type II AG-like MADS-box gene TnS000064931g01 was strongly expressed, the AGL6-like gene TnS000229425g02 was weakly expressed, and two TM8-like genes TnS000061251g01 and TnS000980857g01 were moderately expressed [25]. In the present study, four type II MADS-box genes were differentially expressed, suggesting that these type II MADS-box genes play an essential role in the regulation of seed ripening in G. luofuense.…”

Section: Metabolism and Secondary Metabolitesmentioning

confidence: 99%

“…Previous work has shown that type II MADS-box AG-like and TM8-like genes are highly expressed in G. luofuense seeds [25]. Aux/IAA genes also participate in the development of various organs in seed plants by responding to the hormone auxin/indole-3-acetic acid [26][27][28].…”

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A Full-length Transcriptome and Gene Expression Analysis Reveal Genes and Molecular Elements Expressed During Seed Development in Gnetum Luofuense

Deng

Hou²,

et al. 2020

Preprint

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Abstract Background: Gnetum is an economically important tropical and subtropical gymnosperm genus with various dietary, industrial and medicinal uses. Many carbohydrates, proteins and secondary metabolic compounds accumulate during the ripening of Gnetum seeds.However, the molecular mechanisms related to this process remain unknown. Results: We therefore assembled a full-length transcriptome from immature and mature G. luofuenseseeds using PacBio sequencingreads. We identified a total of 5,726 novel genes, 9,061 alternative splicing events, 3,551 lncRNAs, 2,160 transcription factors, and 359 fusion genes, and we found that 8,512 genes possessed at least one poly(A) site. In addition, gene expression comparisons of six transcriptomes generated by Illumina sequencing showed that14,323 genes were differentially expressed from an immature stage to a mature stage with 7,891 genes upregulated and 6,432 genes downregulated. The expression of 14 differentially expressed transcription factors from the MADS-box, Aux/IAA and bHLH families was validated by qRT-PCR, suggesting that they may have important roles in seed ripening of G. luofuense. Conclusions:These findings provide a valuable molecular resource for domestication and cultivation of Gnetum species.

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Section: Metabolism and Secondary Metabolitesmentioning

confidence: 99%

Section: Metabolism and Secondary Metabolitesmentioning

confidence: 99%

Section: Metabolism and Secondary Metabolitesmentioning

confidence: 99%

Section: Metabolism and Secondary Metabolitesmentioning

confidence: 99%

mentioning

confidence: 99%

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A Full-length Transcriptome and Gene Expression Analysis Reveal Genes and Molecular Elements Expressed During Seed Development in Gnetum Luofuense

Deng

Hou²,

et al. 2020

Preprint

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Revealing the developmental dynamics in male strobilus transcriptome of Gnetum luofuense using nanopore sequencing technology

Hou

Tian²,

Wang

et al. 2021

Sci Rep

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Gnetum is a pantropical distributed gymnosperm genus. As being dioecious, Gnetum species apply female and male strobili to attract and provide nutrition to insect pollinators. Due to its unique gross morphology, a Gnetum male strobilus receives much attention in previous taxonomic and evolutionary studies. However, underlying molecular mechanisms that control male strobilus development and pollination adaptation have not been well studied. In the present study, nine full-length transcriptomes were sequenced from three developmental stages of the G. luofuense male strobili using Oxford Nanopore Technologies. In addition, weighted gene co-expression network analysis (WGCNA), and RT-qPCR analysis were performed. Our results show that a total of 3138 transcription factors and 466 long non-coding RNAs (lncRNAs) were identified, and differentially expressed lncRNAs and TFs reveal a dynamic pattern during the male strobilus development. Our results show that MADS-box and Aux/IAA TFs were differentially expressed at the three developmental stages, suggesting their important roles in the regulation of male strobilus development of G. luofuense. Results of WGCNA analysis and annotation of differentially expressed transcripts corroborate that the male strobilus development of G. luofuense is closely linked to plant hormone changes, photosynthesis, pollination drop secretion and reproductive organ defense. Our results provide a valuable resource for understanding the molecular mechanisms that drive organ evolution and pollination biology in Gnetum.

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Reciprocal expression of MADS-box genes and DNA methylation reconfiguration initiate bisexual cones in spruce

Feng,

Du,

Huang

et al. 2024

Commun Biol

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The naturally occurring bisexual cone of gymnosperms has long been considered a possible intermediate stage in the origin of flowers, but the mechanisms governing bisexual cone formation remain largely elusive. Here, we employed transcriptomic and DNA methylomic analyses, together with hormone measurement, to investigate the molecular mechanisms underlying bisexual cone development in the conifer Picea crassifolia. Our study reveals a “bisexual” expression profile in bisexual cones, especially in expression patterns of B-class, C-class and LEAFY genes, supporting the out of male model. GGM7 could be essential for initiating bisexual cones. DNA methylation reconfiguration in bisexual cones affects the expression of key genes in cone development, including PcDAL12, PcDAL10, PcNEEDLY, and PcHDG5. Auxin likely plays an important role in the development of female structures of bisexual cones. This study unveils the potential mechanisms responsible for bisexual cone formation in conifers and may shed light on the evolution of bisexuality.

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Diversity and Expression Patterns of MADS-Box Genes in Gnetum luofuense—Implications for Functional Diversity and Evolution

Cited by 12 publications

References 59 publications

A Full-length Transcriptome and Gene Expression Analysis Reveal Genes and Molecular Elements Expressed During Seed Development in Gnetum Luofuense

A Full-length Transcriptome and Gene Expression Analysis Reveal Genes and Molecular Elements Expressed During Seed Development in Gnetum Luofuense

Revealing the developmental dynamics in male strobilus transcriptome of Gnetum luofuense using nanopore sequencing technology

Reciprocal expression of MADS-box genes and DNA methylation reconfiguration initiate bisexual cones in spruce

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