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Plant gene family

Juliane Karine Ishida, Danielle G G Caldas, Lucas Roberto Oliveira, Gabriela Campos Frederici, Lucas Margato Pereira Leite, Tsai Siu Mui
Transporter proteins play an essential role in the uptake, trafficking and storage of metals in plant tissues. The Natural Resistance-Associated Macrophage Protein (NRAMP) family plays an essential role in divalent metal transport. We conducted bioinformatics approaches to identify seven NRAMP genes in the Phaseolus vulgaris genome, investigated their phylogenetic relation, and performed transmembrane domain and gene/protein structure analyses. We found that the NRAMP gene family forms two distinct groups. One group included the PvNRAMP1, -6, and -7 genes that share a fragmented structure with a numerous exon/intron organization and encode proteins with mitochondrial or plastidial localization...
October 11, 2018: Genetics and Molecular Biology
Fuxi Rong, Feifan Chen, Li Huang, Jiayu Zhang, Chaowen Zhang, Dong Hou, Zhihui Cheng, Yiqun Weng, Peng Chen, Yuhong Li
We identified two curly-leaf (cul) mutants in cucumber. Map-based cloning revealed that both mutants are due to allelic mutations in the CsPHB gene, a homolog of the Arabidopsis PHABULOSA which encodes a class III homeodomain-leucine zipper (HD-ZIP III) transcription factor. Leaf rolling is an important agronomic trait in crop breeding. Moderate leaf rolling minimizes shadowing between leaves, leading to improved photosynthetic efficiency. Although a number of genes controlling rolled leaf have been identified from rice and other plant species, none have been mapped or cloned in cucurbit crops...
October 17, 2018: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
Simon Snoeck, Nicky Wybouw, Thomas Van Leeuwen, Wannes Dermauw
The two-spotted spider mite Tetranychus urticae is an important pest with an exceptionally broad host plant range. This generalist rapidly acclimatizes and adapts to a new host, hereby overcoming nutritional challenges and a novel pallet of constitutive and induced plant defenses. Although recent studies reveal that a broad transcriptomic response upon host plant transfer is associated with a generalist life style in arthropod herbivores, it remains uncertain to what extent these transcriptional changes are general stress responses or host-specific...
October 17, 2018: G3: Genes—Genomes—Genetics
Lucas Busta, Won Yim, Evan William LaBrant, Peng Wang, Lindsey Grimes, Kiah Malyszka, John C Cushman, Patricia Santos, Dylan K Kosma, Edgar B Cahoon
Polyacetylenic lipids accumulate in various Apiaceae species after pathogen attack, suggesting that these compounds are naturally occurring pesticides and potentially valuable resources for crop improvement. These compounds also promote human health and slow tumor growth. Even though polyacetylenic lipids were discovered decades ago, the biosynthetic pathway underlying their production is unknown. To begin filling this gap, and ultimately enable polyacetylene engineering, we studied polyacetylenes and their biosynthesis in the major Apiaceae crop carrot (Daucus carota subsp...
October 17, 2018: Plant Physiology
Jian-Fang Bai, Yu-Kun Wang, Peng Wang, Shao-Hua Yuan, Jian-Gang Gao, Wen-Jing Duan, Na Wang, Feng-Ting Zhang, Wen-Jie Zhang, Meng-Ying Qin, Chang-Ping Zhao, Li-Ping Zhang
BACKGROUND: COI (CORONATINE INSENSITIVE), an F-box component of the Skp1-Cullin-F-box protein (SCFCOI1 ) ubiquitin E3 ligase, plays important roles in the regulation of plant growth and development. Recent studies have shown that COIs are involved in pollen fertility. In this study, we identified and characterized COI genes in the wheat genome and analyzed expression patterns under abiotic stress. RESULTS: A total of 18 COI candidate sequences for 8 members of COI gene family were isolated in wheat (Triticum aestivum L...
October 17, 2018: BMC Genomics
Yunjian Xu, Suwen Zhu, Fang Liu, Wei Wang, Xuewen Wang, Guomin Han, Beijiu Cheng
Maize can form symbiotic relationships with arbuscular mycorrhiza (AM) fungus to increase productivity and resistance, but the miRNAs in maize responsible for this process have not been discovered. In this study, 155 known and 28 novel miRNAs were identified by performing high-throughput sequencing of sRNA in maize roots colonized by AM fungi. Similar to the profiles in other AM-capable plants, a large proportion of identified maize miRNAs were 24 nt in length. Fourteen and two miRNAs were significantly down- and up-regulated in response to AM fungus Glomus intraradices inoculation, respectively, suggesting potential roles of these miRNAs in AM symbiosis...
October 16, 2018: International Journal of Molecular Sciences
Hye Lin Park, Tae Lim Kim, Seong Hee Bhoo, Tae Hoon Lee, Sang-Won Lee, Man-Ho Cho
Cinnamyl alcohol dehydrogenase (CAD) is involved in the final step of the phenylpropanod pathway, catalyzing the NADPH-dependent reduction of hydroxy-cinnamaldehydes into the corresponding alcohols. The rice genome contains twelve CAD and CAD-like genes, collectively called OsCAD s. To elucidate the biochemical function of the OsCAD s, OsCAD1 , 2 , 6 , and 7 , which are highly expressed in rice, were cloned from rice tissues. The cloned OsCAD s were heterologously expressed in Escherichia coli as His-tag fusion proteins...
October 16, 2018: Molecules: a Journal of Synthetic Chemistry and Natural Product Chemistry
Robert A Amos, Sivakumar Pattathil, Jeong-Yeh Yang, Melani A Atmodjo, Breeanna R Urbanowicz, Kelley W Moremen, Debra Mohnen
Homogalacturonan (HG) is a pectic glycan in the plant cell wall that contributes to plant growth and development, cell wall structure and function, and interacts with other glycans and proteoglycans in the wall. HG is synthesized by the galacturonosyltransferase (GAUT) gene family. Two members of this family, GAUT1 and GAUT7, form a heteromeric enzyme complex in Arabidopsis thaliana. Here, we established a heterologous GAUT expression system in HEK293 cells and show that co-expression of recombinant GAUT1 with GAUT7 results in the production of a soluble GAUT1:GAUT7 complex that catalyzes elongation of HG products in vitro...
October 16, 2018: Journal of Biological Chemistry
Alessio Aprile, Erika Sabella, Marzia Vergine, Alessandra Genga, Maria Siciliano, Eliana Nutricati, Patrizia Rampino, Mariarosaria De Pascali, Andrea Luvisi, Antonio Miceli, Carmine Negro, Luigi De Bellis
BACKGROUND: Among cereals, durum wheat (Triticum turgidum L. subsp. durum) accumulates cadmium (Cd) at higher concentration if grown in Cd-polluted soils. Since cadmium accumulation is a risk for human health, the international trade organizations have limited the acceptable concentration of Cd in edible crops. Therefore, durum wheat cultivars accumulating low cadmium in grains should be preferred by farmers and consumers. To identify the response of durum wheat to the presence of Cd, the transcriptomes of roots and shoots of Creso and Svevo cultivars were sequenced after a 50-day exposure to 0...
October 16, 2018: BMC Plant Biology
S Zoledowska, A Motyka-Pomagruk, W Sledz, A Mengoni, E Lojkowska
BACKGROUND: Pectobacterium parmentieri is a newly established species within the plant pathogenic family Pectobacteriaceae. Bacteria belonging to this species are causative agents of diseases in economically important crops (e.g. potato) in a wide range of different environmental conditions, encountered in Europe, North America, Africa, and New Zealand. Severe disease symptoms result from the activity of P. parmentieri virulence factors, such as plant cell wall degrading enzymes. Interestingly, we observe significant phenotypic differences among P...
October 16, 2018: BMC Genomics
Weiya Li, Zhixing Yang, Jieyuan Yao, Jiansheng Li, Weibin Song, Xiaohong Yang
BACKGROUND: Plant architecture is a critical factor that affects planting density and, consequently, grain yield in maize. The genes or loci that determine organ size are the key regulators of plant architecture. Thus, understanding the genetic and molecular mechanisms of organ size will inform the use of a molecular manipulation approach to improve maize plant architecture and grain yield. RESULTS: A total of 18 unique quantitative trait loci (QTLs) were identified for 11 agronomic traits in the F2 and F2:3 segregating populations derived from a cross between a double haploid line with a small plant architecture (MT03-1) and an inbred line with a large plant architecture (LEE-12)...
October 16, 2018: BMC Plant Biology
Tingting Zhang, Wei Lv, Haisen Zhang, Lin Ma, Pinghua Li, Lei Ge, Gang Li
BACKGROUND: In plants, the basic helix-loop-helix (bHLH) transcription factors play key roles in diverse biological processes. Genome-wide comprehensive and systematic analyses of bHLH proteins have been well conducted in Arabidopsis, rice, tomato and other plant species. However, only few of bHLH family genes have been functional characterized in maize. RESULTS: In this study, our genome-wide analysis identified 208 putative bHLH family proteins (ZmbHLH proteins) in maize (Zea mays)...
October 16, 2018: BMC Plant Biology
Yan-Chao Yin, Xiao-Dong Zhang, Zhi-Qiang Gao, Ting Hu, Ying Liu
Chalcone isomerase (CHI) is the second rate-limiting and the first reported enzyme involved in the biosynthetic pathway of flavonoids. It catalyzes the intramolecular cyclization reaction, converting the bicyclic chalcone into tricyclic (2S)-flavanone. In this paper, we obtained and analyzed 916 DNA sequences, 1310 mRNA sequences, and 2403 amino acid sequences of CHI registered in NCBI by Jan 2018. The full length of CHI DNA sequences ranges from 218 to 3758 bp, CHI mRNA sequences ranges from 265 to 1436 bp, and CHI amino acid sequences ranges from 35 to 465 amino acid residues...
October 15, 2018: Molecular Biotechnology
Yue Zhao, Xiyong Cheng, Xiaodan Liu, Huifang Wu, Huihui Bi, Haixia Xu
Drought is one of the major environmental stresses limiting crop growth and production. MYB family transcription factors play crucial roles in response to abiotic stresses. Previous studies found that TaMYB31 is transcriptionally induced by drought stress. However, the biological functions of TaMYB31 in drought stress responses remained unknown. In this study, three TaMYB31 homoeologous genes from hexaploid wheat, designated TaMYB31-A, TaMYB31-B , and TaMYB31-D , were cloned and characterized. Expression analysis showed that TaMYB31 genes have different tissue expression patterns, and TaMYB31-B has relatively high expression levels in most tested tissues...
2018: Frontiers in Plant Science
Louis Grillet, Ping Lan, Wenfeng Li, Girish Mokkapati, Wolfgang Schmidt
Iron (Fe) is an essential mineral nutrient that severely affects the growth, yield and nutritional quality of plants if not supplied in sufficient quantities. Here, we report that a short C-terminal amino-acid sequence consensus motif (IRON MAN; IMA) conserved across numerous, highly diverse peptides in angiosperms is essential for Fe uptake in plants. Overexpression of the IMA sequence in Arabidopsis induced Fe uptake genes in roots, causing accumulation of Fe and manganese in all plant parts including seeds...
October 15, 2018: Nature Plants
Xiaokang Zhuo, Tangchun Zheng, Zhiyong Zhang, Yichi Zhang, Liangbao Jiang, Sagheer Ahmad, Lidan Sun, Jia Wang, Tangren Cheng, Qixiang Zhang
NAC transcription factors (TFs) participate in multiple biological processes, including biotic and abiotic stress responses, signal transduction and development. Cold stress can adversely impact plant growth and development, thereby limiting agricultural productivity. Prunus mume , an excellent horticultural crop, is widely cultivated in Asian countries. Its flower can tolerate freezing-stress in the early spring. To investigate the putative NAC genes responsible for cold-stress, we identified and analyzed 113 high-confidence PmNAC genes and characterized them by bioinformatics tools and expression profiles...
October 12, 2018: Genes
Lyudmila Zotova, Akhylbek Kurishbayev, Satyvaldy Jatayev, Gulmira Khassanova, Askar Zhubatkanov, Dauren Serikbay, Sergey Sereda, Tatiana Sereda, Vladimir Shvidchenko, Sergiy Lopato, Colin Jenkins, Kathleen Soole, Peter Langridge, Yuri Shavrukov
Two groups of six spring bread wheat varieties with either high or low grain yield under the dry conditions of Central and Northern Kazakhstan were selected for analysis. Experiments were set up with the selected wheat varieties in controlled environments as follows: (1) slowly progressing drought imposed on plants in soil, (2) rapid dehydration of whole plants grown in hydroponics, (3) dehydration of detached leaves, and (4) ABA treatment of whole plants grown in hydroponics. Representatives of two different families of transcription factors (TFs), TaDREB5 and TaNFYC-A7 , were found to be linked to yield-under-drought using polymorphic Amplifluor-like SNP marker assays...
2018: Frontiers in Plant Science
Long Lin, Wenwu Ye, Jiawei Wu, Mingrun Xuan, Yufei Li, Jian Gao, Yonglin Wang, Yan Wang, Suomeng Dong, Yuanchao Wang
Transcriptional regulation is critical for plant pathogen development and virulence. MADS-box transcription factors belong to a highly conserved transcriptional regulator family in eukaryotic organisms that are involved in various important biological processes. Only one predicted MADS-box gene, PsMAD1 , was identified in Phytophthora sojae , which was highly expressed during the sporangia and infection stages. To investigate its function, we generated PsMAD1 knockout mutants using the CRISPR/Cas9 system. Compared with the wild-type strain, the mutants showed no changes in vegetative growth, oospore production, or no differences in sensitivity to various abiotic stresses...
2018: Frontiers in Microbiology
Sandeep J Sarde, Abhishek Kumar, Rahima N Remme, Marcel Dicke
Lipoxygenases mediate important biological processes. Through comparative genomics, domain-scan analysis, sequence analysis, phylogenetic analysis, homology modelling and transcriptional analysis the lipoxygenase gene family of pepper (Capsicum annuum) has been identified. Lipoxygenases (LOXs) are non-heme, iron-containing dioxygenases playing a pivotal role in diverse biological processes in plants, including defence and development. Here, we exploited the recent sequencing of the pepper genome to investigate the LOX gene family in pepper...
October 13, 2018: Plant Molecular Biology
Yuan Tian, Mo-Xian Chen, Jing-Fang Yang, H H K Achala, Bei Gao, Ge-Fei Hao, Guang-Fu Yang, Zhi-Yong Dian, Qi-Juan Hu, Di Zhang, Jianhua Zhang, Ying-Gao Liu
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. The entire process is strictly attenuated by a complex of splicing-related proteins, designated splicing factors. Human p29, also referred to as synthetic lethal with cdc forty 2 (SYF2) or the NineTeen complex 31 (NTC31), is a core protein found in the NTC complex of humans and yeast...
October 13, 2018: Planta
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