Genome-Wide Analysis of the YABBY Transcription Factor Family in Pineapple and Functional Identification of AcYABBY4 Involvement in Salt Stress

Li, Zeyun; Li, Gang; Cai, Mingxing; Priyadarshani, S. V. G. N.; Aslam, Mohammad; Zhou, Qiao; Huang, Xuena; Wang, Xiaomei; Liu, Yeqiang; Qin, Yuan

doi:10.3390/ijms20235863

Cited by 46 publications

(36 citation statements)

References 36 publications

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“…The phylogenetic tree showed that the YABBY genes can be divided into five groups (CRC/DL, INO, FIL, YAB2, and YAB5), but orchid YABBY genes are only found in four clades and absent in the YAB5 clade, which exclusively comprises YABBY genes of basal angiosperms and eudicots. It has been reported that monocot species, including rice and pineapple, also do not contain YAB5 -like genes [ 41 ]. De Almeida et al [ 42 ] studied the comparative development of the androecial form across the Zingiberales and found one YABBY2 gene, which was also less homologous to YAB5 .…”

Section: Discussionmentioning

confidence: 99%

Genome-Wide Identification of YABBY Genes in Orchidaceae and Their Expression Patterns in Phalaenopsis Orchid

Chen

Hsiao

Chang

et al. 2020

Genes

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The plant YABBY transcription factors are key regulators in the lamina development of lateral organs. Orchid is one of the largest families in angiosperm and known for their unique floral morphology, reproductive biology, and diversified lifestyles. However, nothing is known about the role of YABBY genes in orchids, although biologists have never lost their fascination with orchids. In this study, a total of 54 YABBY genes, including 15 genes in CRC/DL, eight in INO, 17 in YAB2, and 14 in FIL clade, were identified from the eight orchid species. A sequence analysis showed that all protein sequences encoded by these YABBY genes share the highly conserved C2C2 zinc-finger domain and YABBY domain (a helix-loop-helix motif). A gene structure analysis showed that the number of exons is highly conserved in the same clades. The genes in YAB2 clade have six exons, and genes in CRC/DL, INO, and FIL have six or seven exons. A phylogenetic analysis showed all 54 orchid YABBY genes could be classified into four major clades, including CRC/DL, INO, FIL, and YAB2. Many of orchid species maintain more than one member in CRC/DL, FIL, and YAB2 clades, implying functional differentiation among these genes, which is supported by sequence diversification and differential expression. An expression analysis of PhalaenopsisYABBY genes revealed that members in the CRC/DL clade have concentrated expressions in the early floral development stage and gynostemium, the fused male and female reproductive organs. The expression of PeINO is consistent with the biological role it played in ovule integument morphogenesis. Transcripts of members in the FIL clade could be obviously detected at the early developmental stage of the flowers. The expression of three genes, PeYAB2,PeYAB3, and PeYAB4, in the YAB2 clade could be revealed both in vegetative and reproductive tissues, and PeYAB4 was transcribed at a relatively higher level than that of PeYAB2 and PeYAB3. Together, this comprehensive analysis provides the basic information for understanding the function of the YABBY gene in Orchidaceae.

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Section: Discussionmentioning

confidence: 99%

Genome-Wide Identification of YABBY Genes in Orchidaceae and Their Expression Patterns in Phalaenopsis Orchid

Chen

Hsiao

Chang

et al. 2020

Genes

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“…“Vegetative” YABBY genes were also shown to act as transcriptional activators of jasmonate-triggered responses [ 89 ]. Consistent with a role in the jasmonate response, recent studies have revealed some new functions of YABBY TFs in the response to abiotic stress (salt, heat, and drought stress response) in pineapple, soybean, grapevine, pomegranate, and cotton [ 51 , 61 , 90 , 91 , 92 , 93 ], leaf curling [ 94 , 95 ], and in the delay of the flowering stage [ 95 ].…”

Section: Expression Patterns and Putative Functions Of Members Of The Yabby Gene Familymentioning

confidence: 97%

YABBY Genes in the Development and Evolution of Land Plants

Romanova

Maksimova

Pawlowski

et al. 2021

IJMS

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Mounting evidence from genomic and transcriptomic studies suggests that most genetic networks regulating the morphogenesis of land plant sporophytes were co-opted and modified from those already present in streptophyte algae and gametophytes of bryophytes sensu lato. However, thus far, no candidate genes have been identified that could be responsible for “planation”, a conversion from a three-dimensional to a two-dimensional growth pattern. According to the telome theory, “planation” was required for the genesis of the leaf blade in the course of leaf evolution. The key transcription factors responsible for leaf blade development in angiosperms are YABBY proteins, which until recently were thought to be unique for seed plants. Yet, identification of a YABBY homologue in a green alga and the recent findings of YABBY homologues in lycophytes and hornworts suggest that YABBY proteins were already present in the last common ancestor of land plants. Thus, these transcriptional factors could have been involved in “planation”, which fosters our understanding of the origin of leaves. Here, we summarise the current data on functions of YABBY proteins in the vegetative and reproductive development of diverse angiosperms and gymnosperms as well as in the development of lycophytes. Furthermore, we discuss a putative role of YABBY proteins in the genesis of multicellular shoot apical meristems and in the evolution of leaves in early divergent terrestrial plants.

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“…Hormone responsive elements were the most abundant, including auxin (IAA), gibberellin (GA), salicylic acid Plant growth and development are affected by various environmental stresses. Therefore, it is important to study the cis-acting elements associated with environmental stress [34]. In this study, 88 elements were related to environmental stress, including 25 lowtemperature-responsive elements, 10 defense-and stress-responsive elements and 53 elements essential for anaerobic induction.…”

Section: Calculation Of Tahat Duplication Eventsmentioning

confidence: 99%

Genome-wide identification of the histone acetyltransferase gene family in Triticum aestivum

Gao

Han

et al. 2021

BMC Genomics

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Background Histone acetylation is a ubiquitous and reversible post-translational modification in eukaryotes and prokaryotes that is co-regulated by histone acetyltransferase (HAT) and histone deacetylase (HDAC). HAT activity is important for the modification of chromatin structure in eukaryotic cells, affecting gene transcription and thereby playing a crucial regulatory role in plant development. Comprehensive analyses of HAT genes have been performed in Arabidopsis thaliana, Oryza sativa, barley, grapes, tomato, litchi and Zea mays, but comparable identification and analyses have not been conducted in wheat (Triticum aestivum). Results In this study, 31 TaHATs were identified and divided into six groups with conserved gene structures and motif compositions. Phylogenetic analysis was performed to predict functional similarities between Arabidopsis thaliana, Oryza sativa and Triticum aestivum HAT genes. The TaHATs appeared to be regulated by cis-acting elements such as LTR and TC-rich repeats. The qRT–PCR analysis showed that the TaHATs were differentially expressed in multiple tissues. The TaHATs in expression also responded to temperature changes, and were all significantly upregulated after being infected by barley streak mosaic virus (BSMV), Chinese wheat mosaic virus (CWMV) and wheat yellow mosaic virus (WYMV). Conclusions These results suggest that TaHATs may have specific roles in the response to viral infection and provide a basis for further study of TaHAT functions in T. aestivum plant immunity.

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Genome-Wide Analysis of the YABBY Transcription Factor Family in Pineapple and Functional Identification of AcYABBY4 Involvement in Salt Stress

Cited by 46 publications

References 36 publications

Genome-Wide Identification of YABBY Genes in Orchidaceae and Their Expression Patterns in Phalaenopsis Orchid

Genome-Wide Identification of YABBY Genes in Orchidaceae and Their Expression Patterns in Phalaenopsis Orchid

YABBY Genes in the Development and Evolution of Land Plants

Genome-wide identification of the histone acetyltransferase gene family in Triticum aestivum

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