scholarly journals Population Structure ofLeishmania tropicaCausing Anthroponotic Cutaneous Leishmaniasis in Southern Iran by PCR-RFLP of Kinetoplastid DNA

2018 ◽  
Vol 2018 ◽  
pp. 1-11 ◽  
Author(s):  
Mohammad Amin Ghatee ◽  
Hossein Mirhendi ◽  
Masoud Marashifard ◽  
Zahra Kanannejad ◽  
Walter R. Taylor ◽  
...  
Keyword(s):  
Population Structure ◽  
Cutaneous Leishmaniasis ◽  
Fragment Length Polymorphism ◽  
Restriction Enzymes ◽  
Group Method ◽  
Kinetoplast Dna ◽  
Banding Patterns ◽  
Pair Group ◽  
Pcr Rflp ◽  
Polymerase Chain

Iran is one of the six countries with the most cutaneous leishmaniasis (CL) patients. Understanding better the genotypes of the parasite population in relation to geography and climate is critical to achieving better CL control. We aimed to characterise the population structure ofLeishmania tropica, the cause of anthroponotic cutaneous leishmaniasis (ACL), from important foci in southeast (Bam and Kerman) and southwest (Shiraz) Iran. A total of 39L. tropicaisolates from ACL patients from southeast (Bam 14, Kerman 12) and southwest (Shiraz 13) Iran were analysed by polymerase chain reaction restriction fragment length polymorphism (PCR-RFLP) of the kinetoplast DNA (kDNA) using restriction enzymesMspI (HpaII) andClaI. 37 genotypes were identified among south IranL. tropicaisolates. The unweighted pair group method with arithmetic mean (UPGMA) tree obtained from the banding patterns ofClaI digested kDNA RFLP distinguished southeast from and southwestL. tropicaisolates with some subclustering but theMspI derived tree showed greater discrimination with greater subclustering and divergence of the two foci of southeast region but with some overlapping. Although a monophyletic structure has been defined for southeastL. tropica, isolates from two foci of southeast Iran were partly discriminated in the current study.

scholarly journals Chloroplast DNA Diversity in Prunus and Its Implication on Genetic Relationships

2007 ◽  
Vol 132 (5) ◽  
pp. 670-679 ◽  
Author(s):  
Mariem Bouhadida ◽  
Juan P. Martín ◽  
Gennady Eremin ◽  
Jorge Pinochet ◽  
María Á. Moreno ◽  
...  
Keyword(s):  
Chloroplast Dna ◽  
Interspecific Hybrids ◽  
Genetic Relationships ◽  
Restriction Enzymes ◽  
Group Method ◽  
Minimum Length ◽  
Universal Primer ◽  
Pair Group ◽  
Pcr Rflp ◽  
Polymerase Chain

Chloroplast DNA (cpDNA) in 84 Prunus L. accessions (interspecific hybrids and Prunus species) were analyzed to confirm the maternal origin of the interspecific hybrids of Prunus and to establish genetic relationships among Prunus species. The polymerase chain reaction–restriction fragment length polymorphism (PCR-RFLP) method, which included amplification of cpDNA regions with three universal primer pairs (K1K2, HK, DT) and subsequent digestion with three restriction enzymes (AluI, HinfI, TaqI), revealed 33 haplotypes for the 84 accessions studied. Fourteen from these cpDNA haplotypes were shared by two or more accessions, and 19 were unique. Accessions sharing the same haplotype have maternal relationships among them, which allowed identity confirmation of maternal progenitors of Prunus interspecific hybrids in these cases. Unweighted pair group method average (UPGMA) and minimum-length spanning tree (MST) analyses were performed based on shared common fragments and the number of mutational differences among the 33 haplotypes, respectively. The cpDNA polymorphisms detected made possible the analysis of genetic relationships among the studied Prunus accessions. Most of the recovered relationships are in agreement with current taxonomic hypotheses and artificial crosses.

A PCR-based approach to distinguish important Diadegma species (Hymenoptera: Ichneumonidae) associated with diamondback moth, Plutella xylostella (Lepidoptera: Plutellidae)

2004 ◽  
Vol 94 (5) ◽  
pp. 465-471 ◽  
Author(s):  
B. Wagener ◽  
A. Reineke ◽  
B. Löhr ◽  
C.P.W. Zebitz
Keyword(s):  
Plutella Xylostella ◽  
Fragment Length Polymorphism ◽  
Diamondback Moth ◽  
Restriction Enzymes ◽  
Morphological Characters ◽  
Pcr Rflp ◽  
Polymerase Chain ◽  
Eastern And Southern Africa ◽  
Second Internal Transcribed Spacer ◽  
Cruciferous Plants

AbstractThe diamondback moth, Plutella xylostella (Linnaeus) has a cosmopolitan distribution and is one of the major pests on cruciferous plants. Biological control, especially with species of the genus Diadegma, has been successfully employed in several parts of the world, mainly in South East Asia. The taxonomy of this genus based on classical morphological characters is still unclear and misidentifications are reported. In the present study seven Diadegma species associated with P. xylostella were separated using polymerase chain reaction–restriction fragment length polymorphism (PCR–RFLP) analyses. The second internal transcribed spacer (ITS2) of the ribosomal DNA (rDNA) was successfully amplified in all 167 individuals and digested using 11 different restriction enzymes. One restriction enzyme (CfoI) showed different restriction profiles in all species and also between two population samples of D. mollipla (Holmgren) from eastern and southern Africa. In addition, a new Diadegma species associated with P. xylostella from Ethiopia was discovered.

scholarly journals Discrimination of Diploid Crucifer Species Using PCR-RFLP of Chloroplast DNA

HortScience ◽  
2004 ◽  
Vol 39 (7) ◽  
pp. 1575-1577 ◽  
Author(s):  
Claudia Cunha ◽  
Muhammet Tonguç ◽  
Phillip D. Griffiths
Keyword(s):  
Chloroplast Dna ◽  
Dna Sequences ◽  
Raphanus Sativus ◽  
Fragment Length Polymorphism ◽  
Diploid Species ◽  
Restriction Enzymes ◽  
Chain Reaction ◽  
Species Identity ◽  
Pcr Rflp ◽  
Polymerase Chain

Chloroplast DNA (cpDNA) was used to identify polymorphisms between crucifer species using the polymerase chain reaction-random fragment-length polymorphism (PCR-RFLP) technique. Ten primer pairs based on cpDNA gene sequences were used to amplify cpDNA fragments in Brassica oleracea L., B. rapa L., B. nigra (L.) Koch, B. napus L., B. carinata Braun, B. juncea (L.) Czern, and Raphanus sativus L. accessions. Amplified DNA sequences were then digested using 11 restriction enzymes to identify polymorphisms between the 7 species. Of the 110 combinations, 38 generated polymorphisms that discriminated one or more of the species. Genotyping of these polymorphisms in 10 accessions of each of the diploid species (B. oleracea, B. nigra, B. rapa and R. sativus) did not reveal segregating polymorphisms among accessions within species, indicating that they can be used to help determine species identity. Ten accessions of each of the amphidiploids B. napus, B. carinata and B. juncea were genotyped to infer their maternal ancestry. The diploid source of cpDNA in B. carinata was B. nigra in all accessions tested and B. rapa for nine of ten B. juncea accessions tested. Two B. napus accessions amplified polymorphisms shared with B. rapa, and eight accessions produced unique polymorphisms from neither B. rapa, B. oleracea or B. nigra. The polymorphisms identified in this study can be used to help confirm identity of the diploid crucifer species for taxonomic and conservation studies.

scholarly journals Use of Random PCR (RAPD) technology to analyze systematic relationships in terrestrial bladderworts (Utricularia L.)

1970 ◽  
Vol 39 (1) ◽  
pp. 97-102 ◽  
Author(s):  
Md Oliur Rahman
Keyword(s):  
Cluster Analysis ◽  
Rapd Markers ◽  
Molecular Taxonomy ◽  
Group Method ◽  
Banding Patterns ◽  
Molecular Approaches ◽  
Pair Group ◽  
Rapd Pcr ◽  
Systematic Relationships ◽  
Polymerase Chain

Polymerase Chain Reaction (PCR) based technology RAPD was tested for its applicability and suitability for molecular systematics of terrestrial bladderworts. PCR was carried out and the resultant products were subjected to agarose gel electrophoresis. The banding patterns were compared among ten species of Utricularia. Out of 40 random oligonucleotide primers examined, 16 primers generated distinguishable bands. Cluster analysis, unweighted pair group method with arithmetic mean (UPGMA) and ordination approach Scatter diagram using Matrix plot were performed based on RAPD fingerprints. The UPGMA and ordination analysis revealed a clear portrayal of systematic relationships in bladderwort species which were concordant with previous studies based on morphology and molecular approaches, indicating the reliability of RAPD markers for estimation of genetic variation and species relationships in Utricularia. Key words: Utricularia; RAPD; PCR; Cluster analysis; Molecular taxonomy DOI: 10.3329/bjb.v39i1.5532Bangladesh J. Bot. 39(1): 97-102, 2010 (June)

Cloning, characterization and identification of polymorphism in TCR Zeta Gene in deoni cattle

2018 ◽  
Author(s):  
K. Swathi ◽  
M. Gnana Prakash ◽  
D. Sakaram ◽  
T. Raghunandan ◽  
A. Sarat Chandra ◽  
...  
Keyword(s):  
T Cell Receptor ◽  
Fragment Length Polymorphism ◽  
Bos Indicus ◽  
Rflp Analysis ◽  
Restriction Enzymes ◽  
Cell Receptor ◽  
Chain Reaction ◽  
Reading Frame ◽  
Pcr Rflp ◽  
Polymerase Chain

The cDNA encoding, T-cell receptor zeta (TCR z; CD247) molecule of Deoni cattle (Bos indicus), was isolated, cloned and sequenced in the present study. The CD247 cDNA comprised 1078 nucleotides including a 30 nucleotide 5¹-untranslated region (UTR), 495 nucleotide single open reading frame (ORF) and 553 nucleotide 3¹-UTR. Deduced amino acid of cattle CD247 sequence was two residues shorter than the corresponding sheep sequences. However, ruminant-specific insertions and substitutions in transmembrane (TM) and intra-cytoplasmic (IC) domain were present in cattle. Immunoreceptor tyrosine-based activation motifs (ITAMs), the important motifs for TCR signalling, were totally conserved among ruminants including cattle. The 3¹ - UTR region of the cattle CD247 was highly homologous to the corresponding region in the buffalo sequence and showed lack of polymorphism after polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) analysis using Hae III and Mse I restriction enzymes in cattle population. Phylogenetically, cattle sequence was closer to buffalo sequence under the ruminant’s lineage. The conserved nature of this gene ensures TCR integrity which is vital for induction of optimal and efficient immune response.

scholarly journals Characterization of Ascaris from Ecuador and Zanzibar

2014 ◽  
Vol 89 (4) ◽  
pp. 512-515 ◽  
Author(s):  
A.M. Sparks ◽  
M. Betson ◽  
G. Oviedo ◽  
C. Sandoval ◽  
P.J. Cooper ◽  
...  
Keyword(s):  
Fragment Length Polymorphism ◽  
Rflp Analysis ◽  
Its Region ◽  
Restriction Enzymes ◽  
Zoonotic Transmission ◽  
Pcr Rflp ◽  
Double Digestion ◽  
Polymerase Chain ◽  
Shed Light

AbstractTo shed light on the epidemiology of ascariasis in Ecuador and Zanzibar, 177 adult worms retrieved by chemo-expulsion from either people or pigs were collected, measured and subjected to polymerase chain reaction–restriction fragment length polymorphism (PCR-RFLP) analysis of the ribosomal internal transcribed spacer (ITS) region. Upon double digestion with RsaI and HaeIII, PCR-RFLP analysis revealed the presence of A. lumbricoides in people and A. suum in pigs in Ecuador. In contrast, while there are no pigs on Zanzibar, of the 56 worms obtained from people, one was genotyped as A. suum. No additional genetic variation was detected upon further PCR-RFLP analysis with several other restriction enzymes. Upon measurement, worm mass and length differed by location and by species, A. suum being lighter and longer. While there is no evidence to suggest zoonotic transmission in Ecuador, an enduring historical signature of previous zoonotic transmission remains on Zanzibar.

Study on DGAT1 Gene Polymorphism in Surti and Banni Buffaloes By PCR-RFLP

2017 ◽  
Vol 13 (02) ◽  
Author(s):  
Y. H. Gadhvi ◽  
V. B. Kharadi ◽  
U. V. Ramani ◽  
G. P. Pandya ◽  
N. S. Dangar ◽  
...  
Keyword(s):  
Fragment Length Polymorphism ◽  
Restriction Enzymes ◽  
Restriction Digestion ◽  
Gene Fragment ◽  
Chain Reaction ◽  
Dgat1 Gene ◽  
Pcr Rflp ◽  
Polymerase Chain ◽  
Gene Exon ◽  
Restriction Fragment Length

This investigation was undertaken with the objective to study DGAT1 gene exon 8 polymorphism using Polymerase Chain Reaction-Restriction Fragment Length Polymorphism (PCR-RFLP) in 53 Surti and 56 Banni buffaloes. The restriction digestion of 412 bp product with AluI revealed only one genotype AA in both Surti and Banni buffaloes. The frequencies of allele A were observed as 0.55 and 0.54 in Surti and Banni buffaloes, respectively on restriction digestion with HincII. The restriction digestion of amplified product with HphI revealed two fragments. The frequency of allele A were 0.71 and 0.36 in Surti and Banni buffaloes, respectively. We found that the 412 bp DGAT1 gene fragment was fairly polymorphic with HincII and HphI restriction enzymes, while monomorphic with AluI restriction enzyme in both buffalo populations studied.

scholarly journals CYP27B1 Gene Polymorphism rs10877012 in Patients Diagnosed with Colorectal Cancer

Nutrients ◽  
2020 ◽  
Vol 12 (4) ◽  
pp. 998
Author(s):  
Maria Latacz ◽  
Jadwiga Snarska ◽  
Elżbieta Kostyra ◽  
Konrad Wroński ◽  
Ewa Fiedorowicz ◽  
...  
Keyword(s):  
Colorectal Cancer ◽  
Vitamin D ◽  
Fragment Length Polymorphism ◽  
Intestinal Cells ◽  
Chain Reaction ◽  
The Third ◽  
Pcr Rflp ◽  
Study Population ◽  
Polymerase Chain ◽  
Peripheral Leukocytes

Colorectal cancer (CRC) is the third most commonly occurring cancer worldwide. Intestinal cells are CYP27B1 gene expression sites and, as a consequence, they are capable of converting pro-vitamin D into the active paracrine and autocrine forms. It was demonstrated that rs10877012 polymorphism in the CYP27B1 gene influenced the circulating vitamin D level. This provided a rationale for determining the role that this polymorphism plays in the risk of developing colon cancer. In this study, we investigated the association of rs10877012 (T/G) polymorphism in the CYP27B1 gene with CRC susceptibility. The study population (n = 325) included CRC patients (n = 106) and healthy controls (n = 219). DNA was extracted from peripheral leukocytes and analyzed for the CYP27B1 polymorphism using the polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) method. We found an association between the presence of the T allele at the polymorphic site (odds ratio (OR) = 2.94; 95% CI 1.77–4.86; p < 0.0001) and a decreased CRC incidence.

scholarly journals Associations of biochemical changes and maternal traits with mutation 1843 (C>T) in the RYR1 gene as a common cause for porcine stress syndrome

2016 ◽  
Vol 19 (2) ◽  
pp. 75-80 ◽  
Author(s):  
ZT Popovski ◽  
B Tanaskovska ◽  
E Miskoska-Milevska ◽  
S Andonov ◽  
S Domazetovska
Keyword(s):  
Fragment Length Polymorphism ◽  
Protein Product ◽  
Biochemical Changes ◽  
Chain Reaction ◽  
Maternal Characteristics ◽  
Stress Syndrome ◽  
Pcr Rflp ◽  
Porcine Stress Syndrome ◽  
Heterozygous Carriers ◽  
Polymerase Chain

AbstractStress syndrome is usually caused by a mutation in theryanodine receptorgene(ryr1) and it is widely studied in humans and swine populations. The protein product of this gene plays a crucial role in the regulation of calcium transport in muscle cells. A G>T mutation in the humanryr1gene, which results in the replacement of a conserved arginine at position 614 where a leucine occurs at the same position as the previously identified Arg→Cys mutation reported in all cases of porcine stress syndrome (PSS). Porcine stress syndrome affects biochemical pathways in stress-susceptible individuals during a stress episode and some biochemical parameters that were used as markers for diagnostic purposes. Also, PSS has remarkable influence on the maternal characteristics of sows. This study dealt with different genotypes for PSS and its association with possible biochemical changes and maternal traits of sows. Seventy-three reproductive sows genotyped for PSS by polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) were included in this survey. Sixty of them were stress-free (NN), 11 were heterozygous carriers (Nn) and two animals were homozygous (nn) for the 1843 (C>T) mutation. Significant differences in non stress induced animals with different PSS genotypes were found in the values of creatine phoshokinase (CPK), lactate dehydrogenase (LDH), alkaline phosphatase (AP) and aspartate aminotransferase (AST). Regarding the maternal traits, our study showed that stress susceptible animals (nn) have an increased number of stillborn piglets and a reduced number of newborn piglets compared with heterozygous and normal animals.

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