New haplotypes for the non-coding region
of mitochondrial DNA in cavity-nesting honey bees Apis koschevnikovi 
and Apis nuluensis

Abstract A study was conducted on the mitochondrial DNA genetic diversity of feral colonies and swarms of Apis mellifera from ten counties in Utah by sequencing the intergenic region of the cytochrome oxidase (COI-COII) gene region. A total of 20 haplotypes were found from 174 honey bee colony samples collected from 2008 to 2017. Samples belonged to the A (African) (48%); C (Eastern Europe) (43%); M (Western Europe) (4%); and O (Oriental) lineages (5%). Ten African A lineage haplotypes were observed with two unique to Utah among A lineage haplotypes recorded in the US. Haplotypes belonging to the A lineage were observed from six Utah counties located in the southern portion of the State, from elevations as high as 1357 m. All five C lineage haplotypes that were found have been observed from queen breeders in the US. Three haplotypes of the M lineage (n=7) and two of the O lineage (n=9) were also observed. This study provides evidence that honey bees of African descent are both common and diverse in wild populations of honey bees in southern Utah. The high levels of genetic diversity of A lineage honey bee colonies in Utah provide evidence that the lineage may have been established in Utah before the introduction of A lineage honey bees from Brazil to Texas in 1990.

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Multiplex analysis of mitochondrial DNA pathogenic and polymorphic sequence variants

Biological Chemistry ◽

10.1515/bc.2010.125 ◽

2010 ◽

Vol 391 (10) ◽

Cited By ~ 7

Author(s):

Jason C. Poole ◽

Vincent Procaccio ◽

Martin C. Brandon ◽

Greg Merrick ◽

Douglas C. Wallace

Keyword(s):

Mitochondrial Dna ◽

Pcr Amplification ◽

Integrated System ◽

Sequence Variants ◽

Coding Region ◽

Single Nucleotide Variants ◽

Standard Curve ◽

Mtdna Mutations ◽

Pathogenic Mutations ◽

Optimal Extension

Abstract The mitochondrial DNA (mtDNA) encompasses two classes of functionally important sequence variants: recent pathogenic mutations and ancient adaptive polymorphisms. To rapidly and cheaply evaluate both classes of single nucleotide variants (SNVs), we have developed an integrated system in which mtDNA SNVs are analyzed by multiplex primer extension using the SNaPshot system. A multiplex PCR amplification strategy was used to amplify the entire mtDNA, a computer program identifies optimal extension primers, and a complete global haplotyping system is also proposed. This system genotypes SNVs on multiplexed mtDNA PCR products or directly from enriched mtDNA samples and can quantify heteroplasmic variants down to 0.8% using a standard curve. With this system, we have developed assays for testing the common pathogenic mutations in four multiplex panels: two genotype the 13 most common pathogenic mtDNA mutations and two genotype the 10 most common Leber Hereditary Optic Neuropathy mutations along with haplogroups J and T. We use a hierarchal system of 140 SNVs to delineate the major global mtDNA haplogroups based on a global phylogenetic tree of coding region polymorphisms. This system should permit rapid and inexpensive genotyping of pathogenic and lineage-specific mtDNA SNVs by clinical and research laboratories.

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Mitochondrial DNA Content Varies with Pathological Characteristics of Breast Cancer

Journal of Oncology ◽

10.1155/2011/496189 ◽

2011 ◽

Vol 2011 ◽

pp. 1-10 ◽

Cited By ~ 25

Author(s):

Ren-Kui Bai ◽

Julia Chang ◽

Kun-Tu Yeh ◽

Mary Ann Lou ◽

Jyh-Feng Lu ◽

...

Keyword(s):

Mitochondrial Dna ◽

Tumor Size ◽

Small Sample Size ◽

Small Sample ◽

Coding Region ◽

Normal Tissues ◽

Pathological Characteristics ◽

Loop Region ◽

Tumor Tissues ◽

Grade Ii

Changes in mitochondrial DNA (mtDNA) content in cancers have been reported with controversial results, probably due to small sample size and variable pathological conditions. In this study, mtDNA content in 302 breast tumor/surrounding normal tissue pairs were evaluated and correlated with the clinico-pathological characteristics of tumors. Overall, mtDNA content in tumor tissues is significantly lower than that in the surrounding normal tissues,P<0.00001. MtDNA content in tumor tissues decreased with increasing tumor size. However, when the tumor is very large (>50 cm3), mtDNA content started to increase. Similarly, mtDNA content decreased from grades 0 and I to grade II tumors, but increased from grade II to grade III tumors. Tumors with somatic mtDNA alterations in coding region have significantly higher mtDNA content than tumors without somatic mtDNA alterations (P<0.001). Tumors with somatic mtDNA alterations in the D-Loop region have significantly lower mtDNA content (P<0.001). Patients with both low and high mtDNA content in tumor tissue have significantly higher hazard of death than patients with median levels of mtDNA content. mtDNA content in tumor tissues change with tumor size, grade, and ER/PR status; significant deviation from the median level of mtDNA content is associated with poor survival.

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Mitochondrial DNA Variation in the CoxI–CoxII Intergenic Region among Turkish and Iranian Honey Bees (Apis mellifera L.)

Biochemical Genetics ◽

10.1007/s10528-009-9269-8 ◽

2009 ◽

Vol 47 (9-10) ◽

pp. 717-721 ◽

Cited By ~ 4

Author(s):

Fulya Özdil ◽

Bahman Fakhri ◽

Hasan Meydan ◽

Mehmet Ali Yıldız ◽

H. Glenn Hall

Keyword(s):

Mitochondrial Dna ◽

Apis Mellifera ◽

Honey Bees ◽

Intergenic Region ◽

Dna Variation

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Analysis of mitochondrial DNA protein-coding region in the Yeso Sika deer (Cervus nippon yesoensis)

Animal Science Journal ◽

10.1111/j.1740-0929.2004.00189.x ◽

2004 ◽

Vol 75 (4) ◽

pp. 295-302 ◽

Cited By ~ 3

Author(s):

Kenta WADA ◽

Michinari YOKOHAMA

Keyword(s):

Mitochondrial Dna ◽

Sika Deer ◽

Cervus Nippon ◽

Coding Region ◽

Protein Coding ◽

Cervus Nippon Yesoensis

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Non-isotopic in situ hybridization method for mitochondria in oncocytes.

Journal of Histochemistry & Cytochemistry ◽

10.1177/42.2.8288868 ◽

1994 ◽

Vol 42 (2) ◽

pp. 273-276 ◽

Cited By ~ 15

Author(s):

V A Varma ◽

C M Cerjan ◽

K L Abbott ◽

S B Hunter

Keyword(s):

Mitochondrial Dna ◽

In Situ Hybridization ◽

Coding Region ◽

Chain Reaction ◽

Formalin Fixed Paraffin ◽

Formalin Fixed Paraffin Embedded ◽

Polymerase Chain ◽

Endogenous Biotin ◽

Formalin Fixed

We used in situ hybridization to specifically identify mitochondria in a series of formalin-fixed, paraffin-embedded oncocytic lesions. Digoxigenin-labeled DNA probes were generated by the polymerase chain reaction (PCR), with primers designed to amplify a mitochondrion-specific 154 BP sequence within the ND4 coding region. Probes were hybridized with mitochondrial DNA under stringent conditions. Oncocytes were strongly and consistently stained, reflecting the high copy number of mitochondrial DNA within these cells. Because of the presence of endogenous biotin within mitochondria, digoxigenin is preferable to biotin as a label for detection of mitochondria.

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