Genomic Survey, Characterization, and Expression Profile Analysis of the SBP Genes in Pineapple (<i>Ananas comosus</i> L.)

Ali, Hina; Liu, Qing; Azam, Syed Muhammad; Rahman, Zia Ur; Priyadarshani, S. V. G. N.; Liu, Weimin; Huang, Xinyu; Hu, Bingyan; Xiong, Jingang; Ali, Umair; Qin, Yuan

doi:10.1155/2017/1032846

Cited by 15 publications

(10 citation statements)

References 31 publications

(45 reference statements)

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“…Pineapple ( Ananas comosus L.) is the second most economically important fruit crop in the world after banana, and the improvement of its qualities are aimed at increasing yield, taste and resistance to environmental changes [ 1 ]. It is a monocotyledonous triploid fruit that belongs to the family Bromeliaceae [ 2 – 4 ]. Pineapple exhibits crassulacean acid metabolism (CAM) and has been used as a model to study the CAM pathway [ 5 ].…”

Section: Introductionmentioning

confidence: 99%

Simple protoplast isolation system for gene expression and protein interaction studies in pineapple (Ananas comosus L.)

Priyadarshani¹,

Hu²,

Liu³

et al. 2018

Plant Methods

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BackgroundAn efficient transformation protocol is a primary requisite to study and utilize the genetic potential of any plant species. A quick transformation system is also crucial for the functional analysis of genes along with the study of proteins and their interactions in vivo. Presently, however, quick and effective transformation systems are still lacking for many plant species including pineapple. This has limited the full exploration of the genetic repository of pineapple as well as the study of its genes, protein localization and protein interactions.ResultsTo address the above limitations, we have developed an efficient system for protoplast isolation and subcellular localization of desired proteins using pineapple plants derived from tissue culture. A cocktail of 1.5% (W/V) Cellulase R-10 and 0.5% (W/V) Macerozyme R-10 resulted in 51% viable protoplasts with 3 h digestion. Compared to previously reported protocols, our protoplast isolation method is markedly faster (saving 4.5 h), requires only a small quantity of tissue sample (1 g of leaves) and has high yield (6.5 × 105). The quality of the isolated protoplasts was verified using organelle localization in protoplasts with different organelle markers. Additionally, colocalization analysis of two pineapple Mg2+ transporter genes in pineapple protoplasts was consistent with the results in a tobacco transient expression system, confirming that the protoplast isolation method can be used to study subcellular localization. Further findings showed that the system is also suitable for protein–protein interaction studies.ConclusionBased on our findings, the presently described method is an efficient and effective strategy for pineapple protoplast isolation and transformation; it is convenient and time saving and provides a greater platform for transformation studies.

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Section: Introductionmentioning

confidence: 99%

Simple protoplast isolation system for gene expression and protein interaction studies in pineapple (Ananas comosus L.)

Priyadarshani¹,

Hu²,

Liu³

et al. 2018

Plant Methods

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“…The genome sequencing of pineapple was completed in 2015 [32], which laid the foundation of the functional study of genes and their relationships. The genome-wide association studies of some TF families have been conducted and reported in pineapple, such as SBP [33], WRKY [34], and DOF [35]. However, the bZIP gene family of pineapple has not yet been carried out.…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Analysis, Characterization, and Expression Profile of the Basic Leucine Zipper Transcription Factor Family in Pineapple

Liu

Chai

Zhang

et al. 2020

International Journal of Genomics

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This study identified 57 basic leucine zipper (bZIP) genes from the pineapple genome, and the analysis of these bZIP genes was focused on the evolution and divergence after multiple duplication events in relation to the pineapple genome fusion. According to bioinformatics analysis of a phylogenetic tree, the bZIP gene family was divided into 11 subgroups in pineapple, Arabidopsis, and rice; gene structure and conserved motif analyses showed that bZIP genes within the same subgroup shared similar intron-exon organizations and motif composition. Further synteny analysis showed 17 segmental duplication events with 27 bZIP genes. The study also analyzed the pineapple gene expression of bZIP genes in different tissues, organs, and developmental stages, as well as in abiotic stress responses. The RNA-sequencing data showed that AcobZIP57 was upregulated in all tissues, including vegetative and reproductive tissues. AcobZIP28 and AcobZIP43 together with the other 25 bZIP genes did not show high expression levels in any tissue. Six bZIP genes were exposed to abiotic stress, and the relative expression levels were detected by quantitative real-time PCR. A significant response was observed for AcobZIP24 against all kinds of abiotic stresses at 24 and 48 h in pineapple root tissues. Our study provides a perspective for the evolutionary history and general biological involvement of the bZIP gene family of pineapple, which laid the foundation for future functional characterization of the bZIP genes in pineapple.

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“…Pineapple plants were MD2 propagated by tissue culture [30] and were supplied by Haixia institute of science and technology Centre for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, China. Plastic pots containing soil mixture (peat moss: perlite = 2:1 ( v / v )) were used for pineapple plants and grown in a growth house at 30 °C temperature and 60–70 mMolL −1 photons m –2 s −1 with 70% humidity and 16/8 h light cycle [9,31,32]. All the Arabidopsis plants used in this research were in background Colombia.…”

Section: Methodsmentioning

confidence: 99%

Identification of SWI2/SNF2-Related 1 Chromatin Remodeling Complex (SWR1-C) Subunits in Pineapple and the Role of Pineapple SWR1 COMPLEX 6 (AcSWC6) in Biotic and Abiotic Stress Response

et al. 2019

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Chromatin remodeling complex orchestrates numerous aspects of growth and development in eukaryotes. SWI2/SNF2-Related 1 chromatin remodeling complex (SWR1-C) is a member of the SWI/SNF ATPase-containing chromatin remodeling complex responsible for the exchange of H2A for H2A.Z. In plants, SWR1-C plays a crucial role by transcriptionally regulating numerous biological and developmental processes. However, SWR1-C activity remains obscure in pineapple. Here, we aim to identify the SWR1-C subunits in pineapple. By genome-wide identification, we found a total of 11 SWR1-C subunits in the pineapple. The identified SWR1-C subunits were named and classified based on the sequence similarity and phylogenetic analysis. RNA-Seq analysis showed that pineapple SWR1-C subunits are expressed differentially in different organs and at different stages. Additionally, the qRT-PCR of pineapple SWR1-C subunits during abiotic stress exposure showed significant changes in their expression. We further investigated the functions of pineapple SWR1 COMPLEX 6 (AcSWC6) by ectopically expressing it in Arabidopsis. Interestingly, transgenic plants ectopically expressing AcSWC6 showed susceptibility to fungal infection and enhanced resistance to salt and osmotic stress, revealing its involvement in biotic and abiotic stress. Moreover, the complementation of mutant Arabidopsis swc6 by pineapple SWC6 suggested the conserved function of SWC6 in plants.

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Genomic Survey, Characterization, and Expression Profile Analysis of the SBP Genes in Pineapple (Ananas comosus L.)

Cited by 15 publications

References 31 publications

Simple protoplast isolation system for gene expression and protein interaction studies in pineapple (Ananas comosus L.)

Simple protoplast isolation system for gene expression and protein interaction studies in pineapple (Ananas comosus L.)

Genome-Wide Analysis, Characterization, and Expression Profile of the Basic Leucine Zipper Transcription Factor Family in Pineapple

Identification of SWI2/SNF2-Related 1 Chromatin Remodeling Complex (SWR1-C) Subunits in Pineapple and the Role of Pineapple SWR1 COMPLEX 6 (AcSWC6) in Biotic and Abiotic Stress Response

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