Genome-wide analysis of the MADS-box gene family in polyploid cotton (Gossypium hirsutum) and in its diploid parental species (Gossypium arboreum and Gossypium raimondii)

Nardeli, Sarah Muniz; Artico, Sinara; Aoyagi, Gustavo Mitsunori; Moura, Stéfanie Menezes de; Silva, Tatiane da Franca; Grossi-de-Sá, Maria Fátima; Romanel, Elisson

doi:10.1016/j.plaphy.2018.03.019

Cited by 35 publications

(39 citation statements)

References 98 publications

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“…With 201 genes, wheat has one of the largest MIKC‐type MADS‐box gene counts among flowering plants (Gramzow & Theißen, ; Vining et al ., ; Nardeli et al ., ). In total, wheat has c .…”

Section: Discussionmentioning

confidence: 97%

“…The expansion of MIKC‐type subfamilies has been reported before in different plant species, such as SOC1 ‐like genes in Eucalyptus as well as SVP ‐like and SOC1 ‐like genes in cotton (Vining et al ., ; Nardeli et al ., ). Intriguingly, genes from FLC , SVP and SOC1 subfamilies are involved in the control of flowering time (Moon et al ., ; Lee et al ., ; Schilling et al ., ).…”

Section: Discussionmentioning

confidence: 97%

“…Rice and Arabidopsis, for example, despite their phylogenetic distance, have a similar number of MIKC-type MADS-box genes (43 and 45, respectively) (Parenicova et al, 2003;Arora et al, 2007;Verelst et al, 2007). With 201 genes, the total number of MIKC-type MADS-box genes in wheat is among the highest of hitherto characterized flowering plant species (Gramzow & Theißen, 2013;Vining et al, 2015;Nardeli et al, 2018). This is partly a result of the hexaploid nature of wheat.…”

Section: Mikc-type Mads-box Genes Belong To Well-defined Subfamiliesmentioning

confidence: 99%

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Genome‐wide analysis of MIKC‐type MADS‐box genes in wheat: pervasive duplications, functional conservation and putative neofunctionalization

et al. 2019

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Summary Wheat (Triticum aestivum) is one of the most important crops worldwide. Given a growing global population coupled with increasingly challenging cultivation conditions, facilitating wheat breeding by fine‐tuning important traits is of great importance. MADS‐box genes are prime candidates for this, as they are involved in virtually all aspects of plant development. Here, we present a detailed overview of phylogeny and expression of 201 wheat MIKC‐type MADS‐box genes. Homoeolog retention is significantly above the average genome‐wide retention rate for wheat genes, indicating that many MIKC‐type homoeologs are functionally important and not redundant. Gene expression is generally in agreement with the expected subfamily‐specific expression pattern, indicating broad conservation of function of MIKC‐type genes during wheat evolution. We also found extensive expansion of some MIKC‐type subfamilies, especially those potentially involved in adaptation to different environmental conditions like flowering time genes. Duplications are especially prominent in distal telomeric regions. A number of MIKC‐type genes show novel expression patterns and respond, for example, to biotic stress, pointing towards neofunctionalization. We speculate that conserved, duplicated and neofunctionalized MIKC‐type genes may have played an important role in the adaptation of wheat to a diversity of conditions, hence contributing to the importance of wheat as a global staple food.

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“…With 201 genes, wheat has one of the largest MIKC‐type MADS‐box gene counts among flowering plants (Gramzow & Theißen, ; Vining et al ., ; Nardeli et al ., ). In total, wheat has c .…”

Section: Discussionmentioning

confidence: 97%

Section: Discussionmentioning

confidence: 97%

Section: Mikc-type Mads-box Genes Belong To Well-defined Subfamiliesmentioning

confidence: 99%

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Genome‐wide analysis of MIKC‐type MADS‐box genes in wheat: pervasive duplications, functional conservation and putative neofunctionalization

et al. 2019

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“…It is known that the FLC genes regulate the flowering time through controlling vernalization and vernalization-independent pathways [ 60 ]. It seems that the FLC clade is absent in plant species, including rice, cotton, and orchid, that do not require vernalization for flowering [ 39 , 41 , 61 ]. This suggests that lotus does not require vernalization for flowering.…”

Section: Discussionmentioning

confidence: 99%

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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“…AGL15 and AGAMOUS-LIKE18 (AGL18) constitute the AGL15 subfamily, and many AGL15 subfamily members were recently identified by genome-wide approaches in many plant species, including Cucumis melo [6], Pyrus bretschneideri [9], Ziziphus jujuba [10], Gossypium hirsutum [2,11], Dianthus caryophyllus [12], Morus notabilis [7], and Hevea brasiliensis [13]. These studies showed that the expression of AGL15 subfamily members is primarily detected in floral organs, implying their important roles in the development of floral organs.…”

Section: Introductionmentioning

confidence: 99%

A Cucumber AGAMOUS-LIKE 15 (AGL15) MADS-Box Gene Mediates Abnormal Leaf Morphology in Arabidopsis

Zhou

et al. 2018

Agronomy

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The AGL15 subfamily MADS-box proteins play vital roles in various developmental processes, such as floral transition, somatic embryogenesis, and leaf and fruit development. In this work, an AtAGL15 ortholog, CsMADS26, was cloned from cucumber (Cucumis sativus L.). The open reading frame (ORF) of CsMADS26 is 669 bp in length, encoding a predicted protein of 222 amino acids. The CsMADS26 protein contains a highly conserved MADS-box domain and a variable C domain, as well as less conserved I and K domains. Phylogenetic relationship analysis revealed that CsMADS26 was clustered into the AGL15 clade of AGL15 subfamily. Expression analysis based on qRT-PCR showed that CsMADS26 is mainly expressed in reproductive organs including flowers and fruits. Transgenic Arabidopsis plants with ectopic expression of CsMADS26 exhibited curled rosette and cauline leaves, and the leaf size was much smaller than that of wild-type (WT) plants. These results provide clues for the functional characterization of CsMADS26 in the future.

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Genome-wide analysis of the MADS-box gene family in polyploid cotton (Gossypium hirsutum) and in its diploid parental species (Gossypium arboreum and Gossypium raimondii)

Cited by 35 publications

References 98 publications

Genome‐wide analysis of MIKC‐type MADS‐box genes in wheat: pervasive duplications, functional conservation and putative neofunctionalization

Genome‐wide analysis of MIKC‐type MADS‐box genes in wheat: pervasive duplications, functional conservation and putative neofunctionalization

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

A Cucumber AGAMOUS-LIKE 15 (AGL15) MADS-Box Gene Mediates Abnormal Leaf Morphology in Arabidopsis

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