Search results for: Mo-Xian Chen

Items from 1 to 20 out of 22 results

article

QuantAS: a comprehensive pipeline to study alternative splicing by absolute quantification of splice isoforms

Yu‐Chen Song, Mo‐Xian Chen, Kai‐Lu Zhang, Anireddy S. N. Reddy, more

New Phytologist > 240 > 3 > 928 - 939

article

MYB30 integrates light signals with antioxidant biosynthesis to regulate plant responses during postsubmergence recovery

Li‐Juan Xie, Jian‐Hong Wang, Hui‐Shan Liu, Li‐Bing Yuan, more

New Phytologist > 237 > 6 > 2238 - 2254

Submergence is an abiotic stress that limits agricultural production world‐wide. Plants sense oxygen levels during submergence and postsubmergence reoxygenation and modulate their responses. Increasing evidence suggests that completely submerged plants are often exposed to low‐light stress, owing to the depth and turbidity of the surrounding water; however, how light availability affects submergence...

article

Ancestral gene duplications in mosses characterized by integrated phylogenomic analyses

Bei Gao, Mo‐Xian Chen, Xiao‐Shuang Li, Yu‐Qing Liang, more

Journal of Systematics and Evolution > 60 > 1 > 144 - 159

Mosses (Bryophyta) are a key group occupying an important phylogenetic position in land plant (embryophyte) evolution. The class Bryopsida represents the most diversified lineage, containing more than 95% of modern mosses, whereas other classes are species‐poor. Two branches with large numbers of gene duplications were elucidated by phylogenomic analyses, one in the ancestry of all mosses and another...

article

Drought stress and plant ecotype drive microbiome recruitment in switchgrass rhizosheath

Tie‐Yuan Liu, Nenghui Ye, Xinyu Wang, Debatosh Das, more

Journal of Integrative Plant Biology > 63 > 10 > 1753 - 1774

The rhizosheath, a layer of soil grains that adheres firmly to roots, is beneficial for plant growth and adaptation to drought environments. Switchgrass is a perennial C4 grass which can form contact rhizosheath under drought conditions. In this study, we characterized the microbiomes of four different rhizocompartments of two switchgrass ecotypes (Alamo and Kanlow) grown under drought or well‐watered...

article

Comprehensive transcriptome and proteome analyses reveal a novel sodium chloride responsive gene network in maize seed tissues during germination

Mo‐Xian Chen, Chong‐Chong Lu, Peng‐Cheng Sun, Yong‐Xin Nie, more

Plant, Cell & Environment > 44 > 1 > 88 - 101

Germination is a plant developmental process by which radicle of mature seeds start to penetrate surrounding barriers for seedling establishment and multiple environmental factors have been shown to affect it. Little is known how high salinity affects seed germination of C4 plant, Zea mays. Preliminary germination assay suggested that isolated embryo alone was able to germinate under 200 mM NaCl treatment,...

article

Phylogenetic comparison of 5′ splice site determination in central spliceosomal proteins of the U1‐70K gene family, in response to developmental cues and stress conditions

Mo‐Xian Chen, Kai‐Lu Zhang, Bei Gao, Jing‐Fang Yang, more

The Plant Journal > 103 > 1 > 357 - 378

Intron‐containing genes have the ability to generate multiple transcript isoforms by splicing, thereby greatly expanding the eukaryotic transcriptome and proteome. In eukaryotic cells, precursor mRNA (pre‐mRNA) splicing is performed by a mega‐macromolecular complex defined as a spliceosome. Among its splicing components, U1 small nuclear ribonucleoprotein (U1 snRNP) is the smallest subcomplex involved...

article

Comprehensive transcriptome analysis of faba bean in response to vernalization

Bei Gao, Xiao-Chun Bian, Feng Yang, Mo-Xian Chen, more

Planta > 2020 > 251 > 1 > 1-15

Main conclusion This study unravels the transcriptional response of a highly productive faba bean cultivar under vernalization treatment. Abstract Faba bean (Vicia faba L.) is a member of the Leguminosae family and an important food crop worldwide providing valuable nutrients for humans. However, genome-wide studies and comprehensive sequencing resources of faba bean remain limited. Vernalization...

article

SWATH-MS-facilitated proteomic profiling of fruit skin between Fuji apple and a red skin bud sport mutant

Mo-Xian Chen, Chao Sun, Kai-Lu Zhang, Yu-Chen Song, more

BMC Plant Biology > 2019 > 19 > 1 > 1-13

Background Apple is one of the most popular fruit crops world-wide and its skin color is an important quality consideration essential for commercial value. However, the strategy on genetic breeding for red skin apple and the genetic basis of skin color differentiation is very limited and still largely unknown. Results Here, we reported a bud sport mutant of Fuji apple with red skin color and enhanced...

article

Comparative metabolite profiling of two switchgrass ecotypes reveals differences in drought stress responses and rhizosheath weight

Tie-Yuan Liu, Mo-Xian Chen, Youjun Zhang, Fu-Yuan Zhu, more

Planta > 2019 > 250 > 4 > 1355-1369

Main conclusion Rhizosheath comprises soil that adheres firmly to roots. In this study, two ecotypes of switchgrass with different rhizosheath sizes after drought stress were analyzed which showed metabolic differences under drought conditions. Abstract The rhizosheath comprises soil that adheres firmly to roots by a combination of root hairs and mucilage and may aid in root growth under soil drying...

article

Recruitment of specific flavonoid B‐ring hydroxylases for two independent biosynthesis pathways of flavone‐derived metabolites in grasses

Pui Ying Lam, Andy C.W. Lui, Masaomi Yamamura, Lanxiang Wang, more

New Phytologist > 223 > 1 > 204 - 219

In rice (Oryza sativa), OsF2H and OsFNSII direct flavanones to independent pathways that form soluble flavone C‐glycosides and tricin‐type metabolites (both soluble and lignin‐bound), respectively. Production of soluble tricin metabolites requires CYP75B4 as a chrysoeriol 5′‐hydroxylase. Meanwhile, the close homologue CYP75B3 is a canonical flavonoid 3′‐hydroxylase (F3′H). However, their precise...

article

Identification, evolution and alternative splicing profile analysis of the splicing factor 30 (SPF30) in plant species

Di Zhang, Jing-Fang Yang, Bei Gao, Tie-Yuan Liu, more

Planta > 2019 > 249 > 6 > 1997-2014

Main conclusion The work offers a comprehensive evaluation on the phylogenetics and conservation of splicing patterns of the plant SPF30 splicing factor gene family.In eukaryotes, one pre-mRNA can generate multiple mRNA transcripts by alternative splicing (AS), which expands transcriptome and proteome diversity. Splicing factor 30 (SPF30), also known as survival motor neuron domain containing protein...

article

Genome-wide identification and functional analysis of the splicing component SYF2/NTC31/p29 across different plant species

Yuan Tian, Mo-Xian Chen, Jing-Fang Yang, H. H. K. Achala, more

Planta > 2019 > 249 > 2 > 583-600

Main conclusion This study systematically identifies plant SYF2/NTC31/p29 genes from 62 plant species by a combinatory bioinformatics approach, revealing the importance of this gene family in phylogenetics, duplication, transcriptional, and post-transcriptional regulation.Alternative splicing is a post-transcriptional regulatory mechanism, which is critical for plant development and stress responses...

article

SWATH-MS quantitative proteomic investigation of nitrogen starvation in Arabidopsis reveals new aspects of plant nitrogen stress responses

Fu-Yuan Zhu, Mo-Xian Chen, Wai-Lung Chan, Feng Yang, more

Journal of Proteomics > 2018 > 187 > C > 161-170

Nitrogen is an essential macronutrient for plant growth and crop productivity. The aim of this work was to further investigate the molecular events during plant adaptation to nitrogen stress. Here, we present a SWATH-MS (Sequential window acquisition of all theoretical mass spectra)-based quantitative approach to detect proteome changes in Arabidopsis seedlings following nitrogen starvation. In total,...

article

Comparative performance of the BGISEQ-500 and Illumina HiSeq4000 sequencing platforms for transcriptome analysis in plants

Fu-Yuan Zhu, Mo-Xian Chen, Neng-Hui Ye, Wang-Min Qiao, more

Plant Methods > 2018 > 14 > 1 > 1-14

Background The next-generation sequencing (NGS) technology has greatly facilitated genomic and transcriptomic studies, contributing significantly in expanding the current knowledge on genome and transcriptome. However, the continually evolving variety of sequencing platforms, protocols and analytical pipelines has led the research community to focus on cross-platform evaluation and standardization...

article

Natural variation in the promoter of rice calcineurin B‐like protein10 (OsCBL10) affects flooding tolerance during seed germination among rice subspecies

Neng‐Hui Ye, Feng‐Zhu Wang, Lu Shi, Mo‐Xian Chen, more

The Plant Journal > 94 > 4 > 612 - 625

Rice (Oryza sativa L.) has two ecotypes, upland and lowland rice, that have been observed to show different tolerance levels under flooding stress. In this study, two rice cultivars, upland (Up221, flooding‐intolerant) and lowland (Low88, flooding‐tolerant), were initially used to study their molecular mechanisms in response to flooding germination. We observed that variations in the OsCBL10 promoter...

article

Proteogenomic analysis reveals alternative splicing and translation as part of the abscisic acid response in Arabidopsis seedlings

Fu‐Yuan Zhu, Mo‐Xian Chen, Neng‐Hui Ye, Lu Shi, more

The Plant Journal > 91 > 3 > 518 - 533

In eukaryotes, mechanisms such as alternative splicing (AS) and alternative translation initiation (ATI) contribute to organismal protein diversity. Specifically, splicing factors play crucial roles in responses to environment and development cues; however, the underlying mechanisms are not well investigated in plants. Here, we report the parallel employment of short‐read RNA sequencing, single molecule...

article

Disruption of the Arabidopsis Defense Regulator Genes SAG101, EDS1, and PAD4 Confers Enhanced Freezing Tolerance

Qin-Fang Chen, Le Xu, Wei-Juan Tan, Liang Chen, more

Molecular Plant > 2015 > 8 > 10 > 1536-1549

In Arabidopsis, three lipase-like regulators, SAG101, EDS1, and PAD4, act downstream of resistance protein-associated defense signaling. Although the roles of SAG101, EDS1, and PAD4 in biotic stress have been extensively studied, little is known about their functions in plant responses to abiotic stresses. Here, we show that SAG101, EDS1, and PAD4 are involved in the regulation of freezing tolerance...

article

Expression of Arabidopsis acyl‐CoA‐binding proteins AtACBP1 and AtACBP4 confers Pb(II) accumulation in Brassica juncea roots

ZHI‐YAN DU, MO‐XIAN CHEN, QIN‐FANG CHEN, JI‐DONG GU, more

Plant, Cell & Environment > 38 > 1 > 101 - 117

In Arabidopsis thaliana, the expression of two genes encoding acyl‐CoA‐binding proteins (ACBPs) AtACBP1 and AtACBP4, were observed to be induced by lead [Pb(II)] in shoots and roots in qRT‐PCR analyses. Quantitative GUS (β‐glucuronidase) activity assays confirmed induction of AtACBP1pro::GUS by Pb(II). Electrophoretic mobility shift assays (EMSAs) revealed that Pas elements in the 5′‐flanking region...

article

Strong seed-specific protein expression from the Vigna radiata storage protein 8SGα promoter in transgenic Arabidopsis seeds

Mo-Xian Chen, Shu-Xiao Zheng, Yue-Ning Yang, Chao Xu, more

Journal of Biotechnology > 2014 > 174 > Complete > 49-56

Vigna radiata (mung bean) is an important crop plant and is a major protein source in developing countries. Mung bean 8S globulins constitute nearly 90% of total seed storage protein and consist of three subunits designated as 8SGα, 8SGα′ and 8SGβ. The 5′-flanking sequences of 8SGα′ has been reported to confer high expression in transgenic Arabidopsis seeds. In this study, a 472-bp 5′-flanking sequence...

article

Engineering plants to tolerate abiotic stresses

Mo-Xian Chen, Shiu-Cheung Lung, Zhi-Yan Du, Mee-Len Chye

Biocatalysis and Agricultural Biotechnology > 2014 > 3 > 1 > 81-87

Abiotic stresses present major challenges in sustaining crop yield. They trigger responses involving molecular mechanisms for cellular adjustments, including signal perception and transduction cascades, transcriptional networks and adaptive metabolic pathways. The past decade has witnessed the completion of genome projects of several model plant species and many candidate genes involved in stress...

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INFONA - science communication portal

Search results for: Mo-Xian Chen

QuantAS: a comprehensive pipeline to study alternative splicing by absolute quantification of splice isoforms

MYB30 integrates light signals with antioxidant biosynthesis to regulate plant responses during postsubmergence recovery

Ancestral gene duplications in mosses characterized by integrated phylogenomic analyses

Drought stress and plant ecotype drive microbiome recruitment in switchgrass rhizosheath

Comprehensive transcriptome and proteome analyses reveal a novel sodium chloride responsive gene network in maize seed tissues during germination

Phylogenetic comparison of 5′ splice site determination in central spliceosomal proteins of the U1‐70K gene family, in response to developmental cues and stress conditions

Comprehensive transcriptome analysis of faba bean in response to vernalization

SWATH-MS-facilitated proteomic profiling of fruit skin between Fuji apple and a red skin bud sport mutant

Comparative metabolite profiling of two switchgrass ecotypes reveals differences in drought stress responses and rhizosheath weight

Recruitment of specific flavonoid B‐ring hydroxylases for two independent biosynthesis pathways of flavone‐derived metabolites in grasses

Identification, evolution and alternative splicing profile analysis of the splicing factor 30 (SPF30) in plant species

Genome-wide identification and functional analysis of the splicing component SYF2/NTC31/p29 across different plant species

SWATH-MS quantitative proteomic investigation of nitrogen starvation in Arabidopsis reveals new aspects of plant nitrogen stress responses

Comparative performance of the BGISEQ-500 and Illumina HiSeq4000 sequencing platforms for transcriptome analysis in plants

Natural variation in the promoter of rice calcineurin B‐like protein10 (OsCBL10) affects flooding tolerance during seed germination among rice subspecies

Proteogenomic analysis reveals alternative splicing and translation as part of the abscisic acid response in Arabidopsis seedlings

Disruption of the Arabidopsis Defense Regulator Genes SAG101, EDS1, and PAD4 Confers Enhanced Freezing Tolerance

Expression of Arabidopsis acyl‐CoA‐binding proteins AtACBP1 and AtACBP4 confers Pb(II) accumulation in Brassica juncea roots

Strong seed-specific protein expression from the Vigna radiata storage protein 8SGα promoter in transgenic Arabidopsis seeds

Engineering plants to tolerate abiotic stresses

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