COMPARATIVE ANALYSIS OF INTER SIMPLE SEQUENCE REPEATS AND SIMPLE SEQUENCE REPEATS MARKERS: GENETIC ANALYSIS OF &lt;i&gt;DESCHAMPSIA CESPITOSA&lt;/i&gt; POPULATIONS GROWING IN METAL CONTAMINATED REGIONS IN CANADA

Nkongolo,

doi:10.3844/ajbbsp.2014.69.80

Cited by 5 publications

(4 citation statements)

References 60 publications

(94 reference statements)

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“…A total of 7 ISSR primers synthesized by Invitrogen were selected for DNA amplification (Table 1). PCR analysis was carried out following the procedure described by Vaillancourt and Nkongolo (2008) and Nkongolo et al (2014). Each PCR reaction was performed using a total of 25 µL volume containing 11.4 µL double distilled water, 10 mM tris-HCl pH 8.3 at 25°C taq buffer, 2 mM MgSO 4 and 0.5 µM of each dNTP (Applied Biosystems, Foster City, CA), 0.5 µM primer, 5 ng/µL genomic DNA and 0.625 U of taq DNA polymerase (Applied Biosystems, Foster City, CA).…”

Section: Amplification With Issr Primersmentioning

confidence: 99%

“…Unlike other molecular markers, ISSRs access variation in the numerous microsatellite regions dispersed throughout the various genomes. This facilitates the characterization of individual loci (Semagn et al, 2006;Mehes et al, 2007;Sharma et al, 2008;Kurane et al, 2009;Nkongolo et al, 2014).…”

Section: Issr Analysismentioning

confidence: 99%

“…Longer lengths of primers permits the use of higher annealing temperature, which in turn reduces non-specific binding and results in higher stringency (Bornet and Branchard, 2004;Qian et al, 2001). Finally, because each band corresponds to a specific DNA sequence by two inverted microsatellites and the amplified products usually range from 100-2000bp long, they can be detected by both agarose and/or polyacrylamide gel electrophoresis (Reddy et al, 2002;Nkongolo et al, 2014).…”

Section: Issr Analysismentioning

confidence: 99%

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DNA Yields and PCR Amplification Success Using Degraded Animal Corpses

Ilunga¹,

Paul²,

Daniel³

et al. 2020

American Journal of Biochemistry and Biotechnology

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A recurring problem with ancient specimens from wildlife animals is that their preserved tissues contain small amounts of DNA in a degraded state. The specific objectives of the present study were: (1) To determine DNA yields from different animal tissues; (2) to compare traditional (manual) DNA extraction protocols with commercial procedures and (3) to assess the success of PCR amplification of Inter-Simple Sequence Repeats (ISSR) loci in degraded animal samples. Liver, stomach and muscle samples were extracted from coyote (Canis latrans) and longtailed weasel (Mustela frenata) for this research. Manual protocols for DNA extraction were compared to a commercial kit procedure (Qiagen DNeasy kit). Genomic DNA in different states (intact, apoptotic and degraded) were amplified using a panel of ISSR primers. No DNA was recovered from coyote stomach samples using the manual extraction protocol. DNA concentrations in stomach and liver samples from coyote were 10.31 ng/µL and 15.8 ng/µL, respectively using the Qiagen extraction kit. In general, the kit extraction method yielded more DNA than the manual extraction procedure but it is more expensive. Intact and apoptotic genomic DNA were successfully amplified by PCR resulting in a similar profile. Artificially degraded DNA showed partial amplification. Thus, the ISSR marker system is suitable for animal population genetics when only limited and/or degraded animal DNA is available.

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Section: Amplification With Issr Primersmentioning

confidence: 99%

Section: Issr Analysismentioning

confidence: 99%

Section: Issr Analysismentioning

confidence: 99%

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DNA Yields and PCR Amplification Success Using Degraded Animal Corpses

Ilunga¹,

Paul²,

Daniel³

et al. 2020

American Journal of Biochemistry and Biotechnology

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“…In recent years, ISSR technique has been incorporated in marine pollution studies to relate genetic variations with environmental pollutants [8,11]. The ISSR technique has been proposed to be a simpler and more effective choice of genetic diversity studies compared to its counterparts such as allozyme and RAPD (Random Fragment Length Polymorphism) [4,5,8,10]. The objective of this study is to investigate the relationship between the heavy metal levels and the genetic polymorphisms of N. lineata collected from 6 sites in mangrove areas of Peninsular Malaysia.…”

Section: Introductionmentioning

confidence: 99%

Relationship between trace metal pollution and genetic polymorphisms in the biomonitor Nerita lineata from Peninsular Malaysia

Wan¹,

Ling²,

Chee³

2017

Seventh International Conference on Advances in Applied Science and Environmental Engineering - ASEE 2017

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Abstract-Genetic markers have long been identified as diagnostic tools to monitor marine pollution, as marine organisms exhibit genetic polymorphisms as adaptation and response towards environmental contaminants. This study aimed to determine the relationship between the heavy metal levels and the genetic polymorphisms of N. lineata, which were collected from six different mangrove areas in Peninsular Malaysia. Inter-Simple Sequence Repeat (ISSR) markers were applied for genetic polymorphism study in the snails while heavy metal analysis was carried out by using the atomic absorption spectrophotometer (AAS) for Cd, Cu, Fe, Ni, Pb and Zn. The results showed that the clustering of genetic polymorphism was based on geographical influences while clustering of heavy metal levels was based on bioaccumulation of the metals by the snails. However, there were no relationship between clustering patterns of the genetic polymorphism and heavy metal levels of the snails. This indicated that the population genetic diversity of N. lineata is not a suitable biomarker for heavy metal.

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Molecular analysis of red maple (Acer rubrum) populations from a reclaimed mining region in Northern Ontario (Canada): soil metal accumulation and translocation in plants

et al. 2015

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Red maple (Acer rubrum) species is one of the most widespread deciduous (hardwood) trees of eastern North America. It is among the dominant tree species in the Northern Ontario after land reclamation. To date, the effects of heavy metal contamination from the mining activities on terrestrial ecosystems are not well understood. The main objectives of the present study are (1) to determine the level of phytoavailable metal in soil and accumulation in A. rubrum, and (2) to compare the levels of genetic variation among and within A. rubrum populations from areas with different metal contents in a Northern Ontario region. The total heavy metal levels were found to be high but the availability of these metals were much lower. We found that red maple does not accumulate heavy metals in their leaves as other hardwood species. The translocation factors were 0.05, 0.21, 0.38, 0.90, and 2.8 for Cu, Ni, Fe, Zn, and Mg, respectively. The levels of genetic variation in red maple populations from reclaimed lands in Northern Ontario were moderate to high since the percentage of polymorphic loci varied between 51 and 67%. The mean values for observed number of alleles (Na), effective number of alleles (Ne), Nei's gene diversity (h), and Shannon's information index (I) were 1.60, 1.24, 0.15 and 0.24, respectively. The population differentiation (GST) among the fragmented populations was high (0.28) despite a high level of gene flow (Nm = 1.28). Nevertheless, all the populations within the targeted region were genetically closely related. A specific ISSR marker that was identified in all the samples from the reference sites was absent in most samples from metal contaminated. This specific band was cloned and sequenced. Overall, the present study confirms that red maple populations in Northern Ontario are genetically sustainable despite the high level of total metal content in soil.

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COMPARATIVE ANALYSIS OF INTER SIMPLE SEQUENCE REPEATS AND SIMPLE SEQUENCE REPEATS MARKERS: GENETIC ANALYSIS OF <i>DESCHAMPSIA CESPITOSA</i> POPULATIONS GROWING IN METAL CONTAMINATED REGIONS IN CANADA

Cited by 5 publications

References 60 publications

DNA Yields and PCR Amplification Success Using Degraded Animal Corpses

DNA Yields and PCR Amplification Success Using Degraded Animal Corpses

Relationship between trace metal pollution and genetic polymorphisms in the biomonitor Nerita lineata from Peninsular Malaysia

Molecular analysis of red maple (Acer rubrum) populations from a reclaimed mining region in Northern Ontario (Canada): soil metal accumulation and translocation in plants

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