scholarly journals The Complete Nucleotide Sequence of a Snake (Dinodon semicarinatus) Mitochondrial Genome With Two Identical Control Regions

Genetics ◽  
1998 ◽  
Vol 150 (1) ◽  
pp. 313-329 ◽  
Author(s):  
Yoshinori Kumazawa ◽  
Hidetoshi Ota ◽  
Mutsumi Nishida ◽  
Tomowo Ozawa
Keyword(s):  
Southern Hybridization ◽  
Gene Organization ◽  
Amino Acid Sequences ◽  
High Rate ◽  
Mitochondrial Genomes ◽  
Trna Genes ◽  
Chain Reaction ◽  
Rate Of Molecular Evolution ◽  
Polymerase Chain ◽  
Control Regions

Abstract The 17,191-bp mitochondrial DNA (mtDNA) of a Japanese colubrid snake, akamata (Dinodon semicarinatus), was cloned and sequenced. The snake mtDNA has some peculiar features that were found in our previous study using polymerase chain reaction: duplicate control regions that have completely identical sequences over 1 kbp, translocation of tRNALeu(UUR) gene, shortened TψC arm for most tRNA genes, and a pseudogene for tRNAPro. Phylogenetic analysis of amino acid sequences of protein genes suggested an unusually high rate of molecular evolution in the snake compared to other vertebrates. Southern hybridization experiments using mtDNAs purified from multiple akamata individuals showed that the duplicate state of the control region is not a transient or unstable feature found in a particular individual, but that it stably occurs in mitochondrial genomes of the species. This may, therefore, be regarded as an unprecedented example of stable functional redundancy in animal mtDNA. However, some of the examined individuals contain a rather scanty proportion of heteroplasmic mtDNAs with an organization of genes distinct from that of the major mtDNA. The gene organization of the minor mtDNA is in agreement with one of models that we present to account for the concerted evolution of duplicate control regions.

Sensitivity of polymerase chain reaction (PCR)-southern hybridization and conventional PCR analysis for Halal authentication of gelatin capsules

LWT ◽  
2015 ◽  
Vol 63 (1) ◽  
pp. 714-719 ◽  
Author(s):  
Sahilah Abd Mutalib ◽  
Nursheila Mustafa Muin ◽  
Aminah Abdullah ◽  
Osman Hassan ◽  
Wan Aida Wan Mustapha ◽  
...  
Keyword(s):  
Polymerase Chain Reaction ◽  
Southern Hybridization ◽  
Pcr Analysis ◽  
Conventional Pcr ◽  
Chain Reaction ◽  
Gelatin Capsules ◽  
Halal Authentication ◽  
Polymerase Chain

scholarly journals Structurally and functionally conserved regions of cytochrome P-450 reductase as targets for DNA amplification by the polymerase chain reaction. Cloning and nucleotide sequence of the Schizosaccharomyces pombe cDNA

1992 ◽  
Vol 287 (1) ◽  
pp. 195-200 ◽  
Author(s):  
J S Miles
Keyword(s):  
Polymerase Chain Reaction ◽  
Schizosaccharomyces Pombe ◽  
Binding Domain ◽  
Amino Acid Sequences ◽  
Chain Reaction ◽  
Conserved Regions ◽  
Reductase Gene ◽  
Degenerate Oligonucleotide ◽  
Polymerase Chain ◽  
Cytochrome P 450

1. Alignments of the available cytochrome P-450 reductase amino acid sequences, and comparison with the crystal structure of ferredoxin-NADP reductase, indicate that two highly conserved regions are of functional importance. 2. Degenerate oligonucleotide primers, based on these sequences, were used in the polymerase chain reaction to amplify a 309 bp fragment of the cytochrome P-450 reductase gene from Schizosaccharomyces pombe for use as an homologous probe. 3. A 2.6 kb cDNA was cloned from a lambda library, and sequencing revealed an open-reading frame of 2034 bp encoding a protein of M(r) 76774. This protein shares 38-41% identity with other eukaryotic cytochrome P-450 reductases, and 30% identity with that of Bacillus megaterium. 4. Comparison of the N-terminal FMN-binding domain with flavodoxin, and the C-terminal FAD- and NADP-binding domain with ferredoxin-NADP reductase, indicates the presence of several functionally conserved regions. 5. The Sc. pombe cytochrome P-450 reductase gene was shown to contain no introns.

Characterization of nematode mitochondrial genomes.

2021 ◽  
pp. 250-264
Author(s):  
Danny A. Humphreys-Pereira ◽  
Taeho Kim ◽  
Joong-Ki Park
Keyword(s):  
Polymerase Chain Reaction ◽  
Mitochondrial Genome ◽  
Genome Annotation ◽  
Pcr Amplification ◽  
Gene Identification ◽  
Mitochondrial Genomes ◽  
Pcr Cloning ◽  
Chain Reaction ◽  
Polymerase Chain

Abstract This chapter presents procedures on polymerase chain reaction (PCR) amplification, protocols for PCR, cloning and sequencing, and mitochondrial genome annotation and gene identification for the characterization of nematodes.

Mitochondrial genomes of Vanhornia eucnemidarum (Apocrita: Vanhorniidae) and Primeuchroeus spp. (Aculeata: Chrysididae): evidence of rearranged mitochondrial genomes within the Apocrita (Insecta: Hymenoptera)

Genome ◽  
2006 ◽  
Vol 49 (7) ◽  
pp. 752-766 ◽  
Author(s):  
Lyda Raquel Castro ◽  
Kalani Ruberu ◽  
Mark Dowton
Keyword(s):  
Molecular Evolution ◽  
Gene Duplication ◽  
Ribosomal Rna ◽  
Nucleotide Composition ◽  
Gene Organization ◽  
Mitochondrial Genomes ◽  
Trna Genes ◽  
Noncoding Regions ◽  
Mt Genome ◽  
Rna Genes

We sequenced most of the mitochondrial (mt) genomes of 2 apocritan taxa: Vanhornia eucnemidarum and Primeuchroeus spp. These mt genomes have similar nucleotide composition and codon usage to those of mt genomes reported for other Hymenoptera, with a total A + T content of 80.1% and 78.2%, respectively. Gene content corresponds to that of other metazoan mt genomes, but gene organization is not conserved. There are a total of 6 tRNA genes rearranged in V. eucnemidarum and 9 in Primeuchroeus spp. Additionally, several noncoding regions were found in the mt genome of V. eucnemidarum, as well as evidence of a sustained gene duplication involving 3 tRNA genes. We also report an inversion of the large and small ribosomal RNA genes in Primeuchroeus spp. mt genome. However, none of the rearrangements reported are phylogenetically informative with respect to the current taxon sample.Key words: mitochondrial genomes, molecular evolution, hymenoptera.

scholarly journals Genetic Diversity of Babesia bovis MSA-1, MSA-2b and MSA-2c in China

Pathogens ◽  
2020 ◽  
Vol 9 (6) ◽  
pp. 473
Author(s):  
Jinming Wang ◽  
Jifei Yang ◽  
Shandian Gao ◽  
Xiaoxing Wang ◽  
Hao Sun ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Immune Responses ◽  
Nested Pcr ◽  
Phylogenetic Analyses ◽  
Apicomplexan Parasite ◽  
Amino Acid Sequences ◽  
Babesia Bovis ◽  
Chain Reaction ◽  
Merozoite Surface Antigen ◽  
Polymerase Chain

The apicomplexan parasite Babesia bovis is a tick-borne intracellular hemoprotozoan parasite that is widespread across China. Genetic diversity is an important strategy used by parasites to escape the immune responses of their hosts. In our present study, 575 blood samples, collected from cattle in 10 provinces, were initially screened using a nested PCR (polymerase chain reaction) for detection of B. bovis infection. To perform genetic diversity analyses, positive samples were further amplified to obtain sequences of three B. bovis merozoite surface antigen genes (MSA-1, MSA-2b, MSA-2c). The results of the nested PCR approach showed that an average of 8.9% (51/575) of cattle were positive for B. bovis infection. Phylogenetic analyses of the predicted amino acid sequences revealed that unique antigen variants were formed only by Chinese isolates. Our findings provide vital information for understanding the genetic diversity of B. bovis in China.

Phylogeny of Vibrio cholerae Isolates from Patients with Cholera Disease in Babylon Province

2019 ◽  
Vol 10 (04) ◽  
pp. 701-707
Author(s):  
Ilham Abbas Bunyan ◽  
Hussein T. Abdulabbas ◽  
Lamees A. Abdul-Lateef
Keyword(s):  
Vibrio Cholerae ◽  
High Rate ◽  
Clinical Samples ◽  
Chain Reaction ◽  
Biochemical Tests ◽  
Diagnostic Kits ◽  
Stool Samples ◽  
Polymerase Chain ◽  
El Tor ◽  
Issr Pcr

In the present study, a total of 35 stool samples were collected in the Central Health Laboratory of Babylon Province from patients presenting invasive cholera disease. The period of collection was from November 2017 to December 2018. Identification of Vibrio cholerae species was carried out by conventional methods, biochemical tests, diagnostic kits and then confirmed by PCR-based assay targeting the ompW gene. The results of this study reported that O1 serogroups were the predominant serogroup among all clinical samples with a high rate of 94.3% (N = 33), while only two isolates of non-O1/non-O139 (NAG) (5.7%) were documented as a causative agent to cholera or cholera-like disease. The phylogenetic relationship among all 35 studied strains elucidated by using polymerase chain reaction (PCR)-based fingerprinting assay (ISSR-PCR). The results of this assay showed grouping of Inaba strains into different clusters indicating that these strains were genetically diverse. Furthermore, V. cholerae El Tor O1 Ogawa strain (OG1) was closely related to strains of Inaba serotype. In contrast, NAG strains (NAG1 and NAG2) were not genetically similar to any of Inaba or Ogawa strains indicating different clone origin.

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