scholarly journals Isolation and Abiotic Stress Resistance Analyses of a Catalase Gene fromIpomoea batatas(L.) Lam

2017 ◽  
Vol 2017 ◽  
pp. 1-10 ◽  
Author(s):  
Bin Yong ◽  
Xiaoyan Wang ◽  
Pan Xu ◽  
Haiyan Zheng ◽  
Xueting Fei ◽  
...  
Keyword(s):  
Sweet Potato ◽  
Stress Responses ◽  
Reading Frame ◽  
Calmodulin Binding ◽  
C Terminus ◽  
Young Leaves ◽  
Quantitative Analyses ◽  
Encoding Gene ◽  
Next Generation Sequencing Ngs ◽  
Generation Sequencing

As an indicator of the antioxidant capability of plants, catalase can detoxify reactive oxygen species (ROS) generated by environmental stresses. Sweet potato is one of the top six most important crops in the world. However, its catalases remain largely unknown. In this study, a catalase encoding gene,IbCAT2(accession number: KY615708), was identified and cloned from sweet potato cv. Xushu 18. It contained a 1479 nucleotides’ open reading frame (ORF). S-R-L, Q-K-L, and a putative calmodulin binding domain were located at the C-terminus of IbCAT2, which suggests that IbCAT2 could be a peroxisomal catalase. Next-generation sequencing (NGS) based quantitative analyses showed thatIbCAT2was mainly expressed in young leaves and expanding tuberous roots under normal conditions. When exposed to 10% PEG6000 or 200 mmol/L NaCl solutions,IbCAT2was upregulated rapidly in the first 11 days and then downregulated, although different tissues showed different degree of change. Overexpression ofIbCAT2conferred salt and drought tolerance inEscherichia coliandSaccharomyces cerevisiae. The positive response ofIbCAT2to abiotic stresses suggested thatIbCAT2might play an important role in stress responses.

scholarly journals Molecular Characterization of a Catalase Gene (VsCat) from Vicia sativa

2016 ◽  
Vol 8 (3) ◽  
pp. 66 ◽  
Author(s):  
Saeid Abu-Romman
Keyword(s):  
Stress Responses ◽  
Abiotic Stresses ◽  
Expression Patterns ◽  
Good Choice ◽  
Vicia Sativa ◽  
Rt Pcr ◽  
Reading Frame ◽  
Calmodulin Binding ◽  
Catalytic Active Site ◽  
Peroxisomal Targeting

In plants, catalases are encoded by a multigene family and are predominantly localized in the peroxisomes and glyoxysomes for scavenging H<sub>2</sub>O<sub>2</sub>. A full-length cDNA encoding <em>Catalase</em> (<em>VsCat</em>) was isolated from <em>Vicia sativa</em> using RT-PCR. The cDNA consisted of 1485 bp open reading frame (ORF) encoding a 494 amino acid polypeptide with a predicted molecular mass of 57.03 kDa and an estimated pI of 6.56. The predicted protein was highly homologues to other catalases from legume plants and contained typical catalytic active site, calmodulin binding domain, and internal peroxisomal targeting signal. Phylogenetic analysis revealed that VsCat is evolutionary close to faba bean and pea Cat1. The expression patterns of <em>VsCat</em> under different abiotic stresses and exogenous phytohormones were determined by quantitative RT-PCR<strong>. </strong>Compared to control plants, <em>VsCat</em> was differentially up-regulated in response to abiotic stresses and phytohormones. The expression analysis suggested that <em>VsCat</em> is involved in different abiotic stress responses. In future experiment, transgenic plants overexpressing <em>VsCat</em> might be a good choice to increase tolerance of forage plants to environmental stresses.

scholarly journals High-Throughput Sequencing of Virus-infected Cucurbita pepo Samples Revealed The Presence of Zucchini Shoestring Virus in Zimbabwe

2019 ◽  
Author(s):  
Charles Karavina ◽  
Jacques Davy Ibaba ◽  
Augustine Gubba
Keyword(s):  
South African ◽  
Cucurbita Pepo ◽  
High Throughput Sequencing ◽  
Gc Content ◽  
Large Open Reading Frame ◽  
Polya Tail ◽  
Reading Frame ◽  
Growing Seasons ◽  
Next Generation Sequencing Ngs ◽  
Generation Sequencing

Abstract Objectives: Plant-infecting viruses remain a serious challenge towards achieving food security worldwide. Cucurbits, in Zimbabwe, like in the other parts of the world, are used in various ways. A small-scaled cucurbit virus survey was conducted in Zimbabwe during the 2014 and 2015 growing seasons. Cucurbit leaf samples displaying virus-like symptoms were collected and stored until analysis. The samples were then subjected to next-generation sequencing (NGS). The data generated from NGS were analysed using genomics technologies. Zucchini shoestring virus (ZSSV), a cucurbit-infecting potyvirus previously described in South Africa was one of the viruses identified. The genomes of three ZSSV isolates from Zimbabwe are described in this note. Results: The three ZSSV isolates had the same genome size of 10297 bp excluding the polyA tail with a 43% GC content. The large open reading frame (ORF) was found at positions 69 to 10106 on the genome and encodes a 3345 amino acids long polyprotein which had the same cleavage site sequences as those described on the South African isolates except for the P1-pro site. The smaller ORF, also called the pretty interesting Potyviridae ORF, was located at positions 3611 to 3793 on the genomes for all three ZSSV isolates.

scholarly journals High-throughput sequencing techniques to flax genetics and breeding

2020 ◽  
Author(s):  
Alena Olegovna Akhmetshina ◽  
Ksenia Vladimirovna Strygina ◽  
Elena Konstantinovna Khlestkina ◽  
Elisaveta Alexandrovna Porokhovinova ◽  
Nina Borisovna Brutch
Keyword(s):  
Stress Responses ◽  
High Throughput Sequencing ◽  
Molecular Genetic ◽  
Stress Factors ◽  
Fundamental Interest ◽  
Genetic Mechanisms ◽  
High Marker Density ◽  
Next Generation Sequencing Ngs ◽  
Generation Sequencing ◽  
Selection Of

Flax (Lnum usitatssimum L.) is an important oil and fiber crop. Using modern methods for flax breeding allows accelerating the introduction of some desired genes into the genotypes of future varieties. Today, an important condition for their creation is the development of research, that is based on next-generation sequencing (NGS). This review summarizes the results obtained using NGS sequencing in flax research. To date, a linkage map with a high marker density has been obtained for L. usitatssimum, which is already being used for a more efficient search for quantitative traits loci. Comparative studies of transcriptomes and miRNomes of flax under stress and in control conditions elucidated molecular-genetic mechanisms of abiotic and biotic stress responses. The very accurate model for genomic selection of flax resistant to pasmo was constructed. Based on NGS-sequencing also some details of the genus Linum evolution were clarified. The knowledge systematized in the review can be useful for researchers working in flax breeding and whereas fundamental interest for understanding the phylogenetic relationships within the genus Linum, the ontogenesis, and the mechanisms of the response of flax plants to various stress factors.

scholarly journals Prenatal Identification of a Novel Mutation in the MCPH1 Gene Associated with Autosomal Recessive Primary Microcephaly (MCPH) using Next Generation Sequencing (NGS)

2021 ◽  
Author(s):  
Ioannis Papoulidis ◽  
Makarios Eleftheriades ◽  
Emmanouil Manolakos ◽  
Simoni Maria Liapi ◽  
Anastasia Konstantinidou ◽  
...  
Keyword(s):  
Autosomal Recessive ◽  
Tandem Repeats ◽  
Novel Mutation ◽  
Homozygous Mutation ◽  
Primary Microcephaly ◽  
Strong Connection ◽  
C Terminus ◽  
Next Generation Sequencing Ngs ◽  
Autosomal Recessive Primary Microcephaly ◽  
Generation Sequencing

MCPH1, otherwise known as the microcephalin gene (*607117) and protein, is a basic regulator of chromosome condensation (BCRT-BRCA1 C-terminus). The Microcephalin protein is made up of three BCRT domains and conserved tandem repeats of interacting phospho-peptide. There is a strong connection between mutations of the MCPH1 and reduced brain growth. Specifically, individuals with such mutations have underdeveloped brains which means smaller size, varying levels of mental retardation, delayed speech and poor language skills, individuals with mild microcephaly and normal intelligence notwithstanding. In this case, a fetus with novel homozygous mutation of the MCPH1 gene ((c.348del)), whose parents were recessive heterozygous for (c.348del), displayed severe microcephaly at 22 weeks of gestation. Due to the effect on splice sites in introns, this mutation causes forming of dysfunctional proteins which lack crucial domains of the C-terminus. Our findings portray an association between the new MCPH1 mutation ((c.348del)) and the clinical features of autosomal recessive primary microcephaly (MCPH) contributing to a broader spectrum related to these pathologies.

scholarly journals Pro197Thr Substitution in Ahas Gene Causing Resistance to Pyroxsulam Herbicide in Rigid Ryegrass (Lolium Rigidum Gaud.)

2021 ◽  
Vol 13 (12) ◽  
pp. 6648
Author(s):  
Barbara Kutasy ◽  
Zsolt Takács ◽  
Judit Kovács ◽  
Verëlindë Bogaj ◽  
Syafiq A. Razak ◽  
...  
Keyword(s):  
Amino Acid ◽  
De Novo ◽  
Acetohydroxyacid Synthase ◽  
Lolium Rigidum ◽  
High Genetic Diversity ◽  
Reading Frame ◽  
Rigid Ryegrass ◽  
High Level ◽  
Next Generation Sequencing Ngs ◽  
Generation Sequencing

Lolium rigidum Gaud. is a cross-pollinated species characterized by high genetic diversity and it was detected as one of the most herbicide resistance-prone weeds, globally. Acetohydroxyacid synthase (AHAS) resistant populations cause significant problems in cereal production; therefore, monitoring the development of AHAS resistance is widely recommended. Using next-generation sequencing (NGS), a de novo transcriptome sequencing dataset was presented to identify the complete open reading frame (ORF) of AHAS enzyme in L. rigidum and design markers to amplify fragments consisting of all of the eight resistance-conferring amino acid mutation sites. Pro197Thr, Pro197Ala, Pro197Ser, Pro197Gln, and Trp574Leu amino acid substitutions have been observed in samples. Although the Pro197Thr amino acid substitution was already described in SU and IMI resistant populations, this is the first report to reveal that the Pro197Thr in AHAS enzyme confers a high level of resistance (ED50 3.569) to pyroxsulam herbicide (Triazolopyrimidine).

scholarly journals Genetic Adaptation of Coxsackievirus B1 during Persistent Infection in Pancreatic Cells

2020 ◽  
Vol 8 (11) ◽  
pp. 1790
Author(s):  
Anni Honkimaa ◽  
Bryn Kimura ◽  
Amir-Babak Sioofy-Khojine ◽  
Jake Lin ◽  
Jutta Laiho ◽  
...  
Keyword(s):  
Type 1 Diabetes ◽  
Persistent Infection ◽  
Prototype Strain ◽  
Structural Proteins ◽  
Capsid Region ◽  
Reading Frame ◽  
Pancreatic Cells ◽  
C Terminus ◽  
Generation Sequencing

Coxsackie B (CVB) viruses have been associated with type 1 diabetes. We have recently observed that CVB1 was linked to the initiation of the autoimmune process leading to type 1 diabetes in Finnish children. Viral persistency in the pancreas is currently considered as one possible mechanism. In the current study persistent infection was established in pancreatic ductal and beta cell lines (PANC-1 and 1.1B4) using four different CVB1 strains, including the prototype strain and three clinical isolates. We sequenced 5′ untranslated region (UTR) and regions coding for structural and non-structural proteins and the second single open reading frame (ORF) protein of all persisting CVB1 strains using next generation sequencing to identify mutations that are common for all of these strains. One mutation, K257R in VP1, was found from all persisting CVB1 strains. The mutations were mainly accumulated in viral structural proteins, especially at BC, DE, EF loops and C-terminus of viral capsid protein 1 (VP1), the puff region of VP2, the knob region of VP3 and infection-enhancing epitope of VP4. This showed that the capsid region of the viruses sustains various changes during persistency some of which could be hallmark(s) of persistency.

Sign in / Sign up

Export Citation Format

Share Document