High-throughput retrotransposon-based genetic diversity of maize germplasm assessment and analysis.

Abstract:

:Maize is one of the world's most important crops and a model for grass genome research. Long terminal repeat (LTR) retrotransposons comprise most of the maize genome; their ability to produce new copies makes them efficient high-throughput genetic markers. Inter-retrotransposon-amplified polymorphisms (IRAPs) were used to study the genetic diversity of maize germplasm. Five LTR retrotransposons (Huck, Tekay, Opie, Ji, and Grande) were chosen, based on their large number of copies in the maize genome, whereas polymerase chain reaction primers were designed based on consensus LTR sequences. The LTR primers showed high quality and reproducible DNA fingerprints, with a total of 677 bands including 392 polymorphic bands showing 58% polymorphism between maize hybrid lines. These markers were used to identify genetic similarities among all lines of maize. Analysis of genetic similarity was carried out based on polymorphic amplicon profiles and genetic similarity phylogeny analysis. This diversity was expected to display ecogeographical patterns of variation and local adaptation. The clustering method showed that the varieties were grouped into three clusters differing in ecogeographical origin. Each of these clusters comprised divergent hybrids with convergent characters. The clusters reflected the differences among maize hybrids and were in accordance with their pedigree. The IRAP technique is an efficient high-throughput genetic marker-generating method.

journal_name

Mol Biol Rep

authors

Ghonaim M,Kalendar R,Barakat H,Elsherif N,Ashry N,Schulman AH

doi

10.1007/s11033-020-05246-4

subject

Has Abstract

pub_date

2020-03-01 00:00:00

pages

1589-1603

issue

3

eissn

0301-4851

issn

1573-4978

pii

10.1007/s11033-020-05246-4

journal_volume

47

pub_type

杂志文章
  • Terena Amerindian group autosomal STR data: comparison studies with other Brazilian populations.

    abstract::Allele frequencies for the high polymorphic short tandem repeats (STR) loci PentaE, PentaD, D18S51, D21S11, TH01, D3S1358, FGA, D16S539, D7820, D13S317, vWA and D81179 were analysed in an native Amerindian population from Mato Grosso do Sul state named Terena. Deviations from Hardy-Weinberg expectations were evaluated...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-011-1234-z

    authors: Manta FS,Silva DA,Sánchez-Diz P,Aguiar JI,Cabello PH,Carvalho EF

    更新日期:2012-04-01 00:00:00

  • Glycoprotein and protein induced changes in liposome permeability.

    abstract::By measuring the permeability across the lipid bilayer in the presence and absence of membrane-bound protein or glycoprotein it should be possible to get an impression concerning their ability to penetrate into the membrane bilayer. Proteins such as phospholipase A2 and acetylcholinesterase markedly increase the perme...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/BF00777245

    authors: Neitchev VZ,Bideaud FA

    更新日期:1982-04-16 00:00:00

  • Genome wide association mapping and candidate gene analysis for pod shatter resistance in Brassica juncea and its progenitor species.

    abstract::We investigated phenotypic variations for pod shattering, pod length and number of seeds per pod in large germplasm collections of Brassica juncea (2n = 36; AABB) and its progenitor species, B. rapa (2n = 20; AA) and B. nigra (2n = 16; BB). Pod shatter resistance was measured as energy required for rupturing a mature ...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-020-05384-9

    authors: Kaur J,Akhatar J,Goyal A,Kaur N,Kaur S,Mittal M,Kumar N,Sharma H,Banga S,Banga SS

    更新日期:2020-04-01 00:00:00

  • Identification and characterization of SSRs from soybean (Glycine max) ESTs.

    abstract::Microsatellites, or simple sequence repeats (SSRs), are very useful molecular markers for a number of plant species. We used a new publicly available module (TROLL) to extract microsatellites from the public database of soybean expressed sequence tag (EST) sequences. A total of 12,833 sequences containing di- to penta...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-012-1776-8

    authors: Xin D,Sun J,Wang J,Jiang H,Hu G,Liu C,Chen Q

    更新日期:2012-09-01 00:00:00

  • Microarray analysis of high-glucose diet-induced changes in mRNA expression in jejunums of C57BL/6J mice reveals impairment in digestion, absorption.

    abstract::Long term intake of high-glucose diet (HGD) may induce many diseases such as dyslipidemia, fatty liver and diabetes disease. Most of the research for molecular mechanisms of the association between HGD and the above diseases focus on the metabolism of glucose and lipid. However, there are few studies on molecular mech...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-009-9622-3

    authors: Du D,Shi YH,Le GW

    更新日期:2010-04-01 00:00:00

  • Recombinant β-1,3-1,4-glucanase from Theobroma cacao impairs Moniliophthora perniciosa mycelial growth.

    abstract::In this work, we identified a gene from Theobroma cacao L. genome and cDNA libraries, named TcGlu2, that encodes a β-1,3-1,4-glucanase. The TcGlu2 ORF was 720 bp in length and encoded a polypeptide of 239 amino acids with a molecular mass of 25.58 kDa. TcGlu2 contains a conserved domain characteristic of β-1,3-1,4-glu...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-013-2640-1

    authors: Britto DS,Pirovani CP,Andrade BS,Dos Santos TP,Pungartnik C,Cascardo JC,Micheli F,Gesteira AS

    更新日期:2013-09-01 00:00:00

  • Matrix metalloproteinase-3 predicts clinical cardiovascular outcomes in patients with coronary artery disease: a 5 years cohort study.

    abstract::Matrix metalloproteinases (MMPs) are implicated in atherosclerosis evolution into a coronary artery disease (CAD). They could be used as biomarkers for a predictive approach when they are studied simultaneously. We aim in our study to demonstrate prospectively in patients with history of CAD that MMPs level is linked ...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-019-04914-4

    authors: Guizani I,Zidi W,Zayani Y,Boudiche S,Hadj-Taieb S,Sanhaji H,Zaroui A,Mechmeche R,Mourali MS,Feki M,Allal-Elasmi M

    更新日期:2019-10-01 00:00:00

  • Structure and structure formation of the 20S proteasome.

    abstract::Eukaryotic 20S proteasomes are complex oligomeric proteins. The maturation process of the 14 different alpha- and beta-subunits has to occur in a highly coordinate manner. In addition beta-subunits are synthesized as proproteins and correct processing has to be guaranteed during complex maturation. The structure forma...

    journal_title:Molecular biology reports

    pub_type: 杂志文章,评审

    doi:10.1023/a:1006826725056

    authors: Schmidt M,Schmidtke G,Kloetzel PM

    更新日期:1997-03-01 00:00:00

  • Potential role of serum fetuin-A in relation with pro-inflammatory, chemokine and adhesion molecules in diabetic kidney disease: a case-control study.

    abstract::Inflammatory cytokine, adipokine and adhesion molecules are known to play a key role in pathogenesis of diabetic kidney disease (DKD). In this study, our aim was to investigate the role of fetuin-A in relation with pro-inflammatory cytokines (IL-6, IL-18), adipokines (adiponectin, leptin), chemokine (MCP-1), and adhes...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-019-04592-2

    authors: Nawaz SS,Joy SS,Al Farsi Y,George TP,Siddiqui K

    更新日期:2019-02-01 00:00:00

  • Single and multiple CH (calponin homology) domain containing multidomain proteins in Arabidopsis and Saccharomyces: an inventory.

    abstract::Genes for individual domains such as CH, lim, ankyrin, PH and RhoGAP, IQ motif, Ig_FLMN, spectrin, and EF hand probably existed in early evolution before there were plants, fungi or animals so that when we examine multidomain proteins in Arabidopsis, Saccharomyces, Dictyostelium or Homo Sapiens we encounter various co...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-010-0097-z

    authors: Friedberg F

    更新日期:2011-01-01 00:00:00

  • Ultrasound-mediated microbubble destruction facilitates gene transfection in rat C6 glioma cells.

    abstract::The goal of this study was to determine whether ultrasound (US) exposure combined with microbubble destruction could be used to enhance non-viral gene delivery in rat C6 glioma cells. Microbubbles were prepared and gently mixed with plasmid DNA. The mixture of the DNA and microbubbles was administered to cultured C6 c...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-008-9307-3

    authors: Wang JF,Wu CJ,Zhang CM,Qiu QY,Zheng M

    更新日期:2009-07-01 00:00:00

  • Molecular cloning and tissue expression of the fatty acid-binding protein (Es-FABP9) gene in the reproduction seasons of Chinese mitten crab, Eriocheir sinensis.

    abstract::Fatty acid-binding proteins (FABPs), small cytosolic proteins that function in the uptake and utilization of fatty acids, have been extensively studied in higher vertebrates while invertebrates have received little attention despite similar nutritional requirements during periods of reproductive activity. Therefore, a...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-010-0666-1

    authors: Li WW,Jin XK,He L,Gong YN,Jiang H,Wang Q

    更新日期:2011-11-01 00:00:00

  • The targets of 2,2',5,5'-tetrachlorobiphenyl in the respiratory chain of rat liver mitochondria revealed by modular kinetic analysis.

    abstract::The response of the respiratory subsystem of oxidative phosphorylation to the environmental pollutant, 2,2',5,5'-tetrachlorobiphenyl (2,2',5,5'-TCB) was investigated by modular kinetic approach. The effects of 20 microM 2,2',5,5'-TCB on the activity of the respiratory chain modules in rat liver mitochondria oxidizing ...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1023/a:1020394016372

    authors: Mildaziene V,Nauciene Z,Krab K

    更新日期:2002-01-01 00:00:00

  • Rapid development of 56 novel microsatellite markers for the benthic freshwater bug Aphelocheirus aestivalis using Illumina paired-end sequencing data and M13-tailed primers.

    abstract::The freshwater true bug Aphelocheirus aestivalis (Aphelocheiridae) is widely distributed in Europe but occurs rather locally and often in isolated populations. Moreover, it is threatened with extinction in parts of its range. Unfortunately, little is known about the genetic diversity and population structure due to th...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-020-05974-7

    authors: Kaczmarczyk-Ziemba A

    更新日期:2020-12-01 00:00:00

  • Cordyceps sinensis protects against renal ischemia/reperfusion injury in rats.

    abstract::Cordyceps sinensis (CS) is an entomogenous fungus used as a tonic food and Chinese medicine to replenish health. This study investigated the protective effects of CS in rats post-renal ischemia-reperfusion (I/R) sequence by analyzing the influence on stromal cell-derived factor-1α (SDF-1α and chemokine (C-X-C motif) r...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-012-2316-2

    authors: Wang HP,Liu CW,Chang HW,Tsai JW,Sung YZ,Chang LC

    更新日期:2013-03-01 00:00:00

  • Inhibitory mechanism of Penicillin V on mushroom tyrosinase.

    abstract::Penicillin V is a bacteriolytic β-lactam antibiotic drug. In the present work, we investigated the inhibitory effect of Penicillin V on the activity of mushroom tyrosinase for the first time. The molecular mechanism for the inhibition of tyrosinase by Penicillin V was investigated by means of kinetics analysis, fluore...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-019-05188-6

    authors: Dong X,Wang S,Xu L,Lin J,Xu X

    更新日期:2020-02-01 00:00:00

  • Identification and characterization of spermidine synthase gene from Panax ginseng.

    abstract::A full length spermidine synthase (PgSPD) cDNA was isolated and characterized from the root of Panax ginseng C. A. Meyer. The cDNA was 1,188 nucleotides long and had an open reading frame of 1,002 bp with a deduced amino acid sequence of 333 residues. The calculated molecular mass of the matured protein is approximate...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-009-9725-x

    authors: Parvin S,Kim YJ,Pulla RK,Sathiyamoorthy S,Miah MG,Kim YJ,Wasnik NG,Yang DC

    更新日期:2010-02-01 00:00:00

  • Resveratrol affects histone 3 lysine 27 methylation of vessels and blood biomarkers in DOCA salt-induced hypertension.

    abstract::Hypertension is a risk factor for the cardiovascular diseases. Although, several drugs are used to treat hypertension, the success of the antihypertensive therapy is limited. Resveratrol decreases blood pressure in animal models of hypertension. This study researched the mechanisms behind the effects of resveratrol on...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-014-3737-x

    authors: Han S,Uludag MO,Usanmaz SE,Ayaloglu-Butun F,Akcali KC,Demirel-Yilmaz E

    更新日期:2015-01-01 00:00:00

  • Annexin 1 protects against apoptosis induced by serum deprivation in transformed rat retinal ganglion cells.

    abstract::To investigate whether Annexin 1 can protect a retinal ganglion cells line (RGC-5) from apoptosis as induced by serum deprivation. Annexin 1 location in RGC-5 cells was determined using an indirect immunofluorescent assay. Expression of Annexin 1 in RGC-5 cultures deprived of serum for 0, 2 days was semi-quantified by...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-011-1358-1

    authors: Sun J,Shao Z,Yang Y,Wu D,Zhou X,Yuan H

    更新日期:2012-05-01 00:00:00

  • Genomic organization and promoter analysis of a transcriptional repressor gene from Fenneropenaeus chinensis.

    abstract::In this study, we cloned and sequenced genomic sequences from a Fenneropenaeus chinensis transcriptional repressor gene, FcTR. The FcTR gene is 2,671 bp in length and has four exons and three introns. The 873 bp promoter contains several transcription factor binding sites, including a TATA box and a cyclic AMP-respons...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-014-3780-7

    authors: Lai X,Shen S,Gao H,Yan B

    更新日期:2015-02-01 00:00:00

  • Overexpression of GmSUMO2 gene confers increased abscisic acid sensitivity in transgenic soybean hairy roots.

    abstract::Small ubiquitin-like modifier (SUMO) participates in post-translational modification of various target proteins. SUMOylation is an important molecular regulatory mechanism for plants to respond to abiotic stress. In the present study, GmSUMO2 gene was isolated from soybean seedlings for further study because of the hi...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-020-05433-3

    authors: Guo J,Wang S,Wang G,Lu R,Wang Y,Guo Y,Ji W

    更新日期:2020-05-01 00:00:00

  • Gene expression changes and promoter methylation with the combined effects of estradiol and leptin in uterine tissue of the ovariectomized mice model of menopause.

    abstract::Substantial epidemiological studies have shown an association of obesity with the common gynecological malignancy, endometrial cancer. The relevant interactions and contribution of estradiol and the adipose cytokine, leptin, in endometrial lesions are not completely understood. Suitable animal models to understand the...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-019-05116-8

    authors: Shetty A,Venkatesh T,Tsutsumi R,Suresh PS

    更新日期:2020-01-01 00:00:00

  • Novel cis-acting regulatory elements in wild Oryza species impart improved rice bran quality by lowering the expression of phospholipase D alpha1 enzyme (OsPLDα1).

    abstract::Rice bran oil is good quality edible oil, rich in antioxidants and comprised typically of oleic-linoleic type fatty acids. However, presence of a highly lipolytic enzyme Phospholipase D alpha1 (OsPLDα1) increases free fatty acid content in the oil which further leads to stale flavor and rancidity of the oil, making it...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-019-05144-4

    authors: Kaur A,Neelam K,Kitazumi A,Kaur K,Sharma P,Mangat GS,de Los Reyes BG,Brar DS,Singh K

    更新日期:2020-01-01 00:00:00

  • Cloning and characterization of a novel stress-responsive WRKY transcription factor gene (MusaWRKY71) from Musa spp. cv. Karibale Monthan (ABB group) using transformed banana cells.

    abstract::WRKY transcription factor proteins play significant roles in plant stress responses. Here, we report the cloning and characterization of a novel WRKY gene, MusaWRKY71 isolated from an edible banana cultivar Musa spp. Karibale Monthan (ABB group). MusaWRKY71, initially identified using in silico approaches from an abio...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-010-0521-4

    authors: Shekhawat UK,Ganapathi TR,Srinivas L

    更新日期:2011-08-01 00:00:00

  • Evaluation of tumor suppressor gene expressions and aberrant methylation in the colon of cancer-induced rats: a pilot study.

    abstract::Altered expression and methylation pattern of tumor suppressor and DNA repair genes, in particular involved in mismatch repair (MMR) pathway, frequently occur in primary colorectal (CRC) tumors. However, little is known about (epi)genetic changes of these genes in precancerous and early stages of CRC. The aim of this ...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-013-2699-8

    authors: Polakova Vymetalkova V,Vannucci L,Korenkova V,Prochazka P,Slyskova J,Vodickova L,Rusnakova V,Bielik L,Burocziova M,Rossmann P,Vodicka P

    更新日期:2013-10-01 00:00:00

  • PDIA3 mRNA expression and IL-2, IL-4, IL-6, and CRP levels of acute kidney allograft rejection in rat.

    abstract::Kidney transplantation to treat end-stage renal disease has evolved rapidly from the first successful transplantations to the current widespread use of grafts from both cadaveric and living donors. But acute rejection is still a strong risk factor for chronic rejection in recipients of renal grafts. To investigate pos...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-011-1321-1

    authors: Chen G,Mi J,Xiao MZ,Fu YR

    更新日期:2012-05-01 00:00:00

  • Polymorphisms in the HPC/ELAC-2 and alpha 1-antitrypsin genes that correlate with human diseases in a North Indian population.

    abstract::Two genes HPC/ELAC-2 and AAT were studied in north Indian population. HPC/ELAC-2 was studied in prostate cancer cases and AAT was studied in COPD patients. HPC/ELAC-2 is considered as an important cancer-susceptibility gene in prostate cancer. There are two common polymorphisms of this gene, i.e., Ser217Leu and Ala541...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-010-9984-6

    authors: Sobti RC,Thakur H,Gupta L,Janmeja AK,Seth A,Singh SK

    更新日期:2011-06-01 00:00:00

  • Marker association study of yield attributing traits in common bean (Phaseolus vulgaris L.).

    abstract::Common bean is gaining acceptance as one of the most valuable major food consumed worldwide owing to innumerable nutritional and therapeutic benefits. Comparatively less productivity in underdeveloped countries encouraged us to proceed for QTL mining of yield traits in common bean. Heretofore, multiple yield associate...

    journal_title:Molecular biology reports

    pub_type: 杂志文章

    doi:10.1007/s11033-020-05735-6

    authors: Gupta N,Zargar SM,Singh R,Nazir M,Mahajan R,Salgotra RK

    更新日期:2020-09-01 00:00:00

  • Signal transduction mechanisms in the regulation of protein synthesis.

    abstract::Control of polypeptide synthesis plays an important role in cell proliferation and translation rates generally reflect the growth state of the cultured eukaryotic cell. Physiological regulation of protein synthesis is almost always exerted at the level of polypeptide chain initiation, with the binding of mRNA to the s...

    journal_title:Molecular biology reports

    pub_type: 杂志文章,评审

    doi:10.1007/BF00986964

    authors: Morley SJ

    更新日期:1994-05-01 00:00:00

  • Association of the interleukin-10 1082G/A, 819C/T and 3575T/A gene polymorphisms with systemic sclerosis: a meta-analysis.

    abstract::Many environmental and genetic factors have been contributed to the development of systemic sclerosis (SSc). To determine whether IL-10 gene polymorphisms are associated with SSc, we conducted a meta-analysis approach. A total of eight studies involving 1,034 SSc cases and 1,815 controls were obtained by electronic da...

    journal_title:Molecular biology reports

    pub_type: 杂志文章,meta分析

    doi:10.1007/s11033-012-1510-6

    authors: Peng WJ,Wang BX,Pan HF,Tao JH,Zhang JQ,He Q,Xiao CC,Wang J

    更新日期:2012-06-01 00:00:00