Evaluation of genetic diversity of Chinese Pleurotus ostreatus cultivars using DNA sequencing technology

This study reports the development, characterization, and cross-species transferability of 20 genomic microsatellite markers for Aronia melanocarpa, an important nutraceutical fruit crop. The markers were developed with Illumina paired-end genomic sequencing technology using DNA from Professor Ed cultivar that was originally collected from the wild in New Hampshire. The markers were highly polymorphic and transferable to Aronia arbutifolia and Aronia prunifolia genomes. The average number of alleles per locus was 9.1, 4.5, and 5.6 for A. melanocarpa, A. arbutifolia, and A. prunifolia, respectively. The polymorphism information content (PIC) of loci ranged from 0.38 to 0.95 for all taxa, with an average of 0.80, 0.68, and 0.87 for A. melanocarpa, A. arbutifolia, and A. prunifolia, respectively. This is the first study to develop microsatellite markers in the Aronia genus. These markers will be very useful in studying the genetic diversity and population structure of wild Aronia and expediting the breeding efforts of this emerging fruit crop through marker-assisted selection.

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Current and Future Methodology for Quantitation and Site-specific Mapping the Location of DNA Adducts

10.20944/preprints202112.0300.v1 ◽

2021 ◽

Author(s):

Gunnar Boysen ◽

Intawat Nookaew

Keyword(s):

Dna Sequencing ◽

Dna Adducts ◽

Single Molecule ◽

State Of The Art ◽

Dna Adduct ◽

Sequencing Technology ◽

Specific Mass ◽

Comprehensive Picture ◽

Specific Mapping ◽

Altered Gene

Abstract: Formation of DNA adducts is a key event for a genotoxic mode of action and its formation is often use as surrogate for mutation and cancer. Interest in DNA adducts are twofold, first, to demonstrate exposure, and second, to link DNA adduct location to subsequent mutations or altered gene regulation. High chemically specific mass spectrometry methods have been established for DNA adduct quantitation and elegant bio-analytic methods utilizing enzymes, various chemistries, and molecular biology methods to visualize the location of DNA adducts. Traditionally, these highly specific methods cannot be combined, and the results are incomparable. Initially developed for single-molecule DNA sequencing, nanopore-type technologies are expected to enable simultaneous quantitation and location of DNA adducts across the genome. We will briefly summarize the current methodologies for state-of-the-art quantitation of DNA adduct levels and mapping of DNA adducts and describe novel single-molecule DNA sequencing technology that is expected to achieve both measures simultaneously. Emerging technologies are expected to soon provide a comprehensive picture of the exposome and identify gene regions susceptible to DNA adduct formation.

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Chemical and Genetic Diversity of Ligularia hodgsonii in China

Natural Product Communications ◽

10.1177/1934578x1501000605 ◽

2015 ◽

Vol 10 (6) ◽

pp. 1934578X1501000

Author(s):

Chiaki Kuroda ◽

Kou Inagaki ◽

Xun Chao ◽

Kyosuke Inoue ◽

Yasuko Okamoto ◽

...

Keyword(s):

Genetic Diversity ◽

Dna Sequencing ◽

Yunnan Province

Ligularia hodgsonii was found to be diverse in China. Furanoeremophilanes were isolated from samples collected in Yunnan Province, while such compounds were absent from samples from Sichuan, Gansu, and Chongqing. DNA sequencing showed that the Yunnan samples were also genetically distinct. γ-Humulene and a new bisabolane sesquiterpene were isolated.

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Cyanobacterial biodiversity of semiarid public drinking water supply reservoirs assessed via next-generation DNA sequencing technology

The Journal of Microbiology ◽

10.1007/s12275-019-8349-7 ◽

2019 ◽

Vol 57 (6) ◽

pp. 450-460 ◽

Cited By ~ 4

Author(s):

Adriana Sturion Lorenzi ◽

Mathias Ahii Chia ◽

Fabyano Alvares Cardoso Lopes ◽

Genivaldo Gueiros Z. Silva ◽

Robert A. Edwards ◽

...

Keyword(s):

Drinking Water ◽

Water Supply ◽

Dna Sequencing ◽

Drinking Water Supply ◽

Next Generation ◽

Sequencing Technology ◽

Next Generation Dna Sequencing ◽

Public Drinking Water ◽

Public Drinking ◽

Water Supply Reservoirs

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Genetic diversity of Prunus sibirica L. superior accessions based on the SSR markers developed using restriction-site associated DNA sequencing

Genetic Resources and Crop Evolution ◽

10.1007/s10722-020-01011-5 ◽

2020 ◽

Author(s):

Jianhua Chen ◽

Shengjun Dong ◽

Xin Zhang ◽

Yueliang Wu ◽

Haokai Zhang ◽

...

Keyword(s):

Genetic Diversity ◽

Dna Sequencing ◽

Ssr Markers ◽

Restriction Site

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Cultivating DNA Sequencing Technology After the Human Genome Project

Annual Review of Genomics and Human Genetics ◽

10.1146/annurev-genom-111919-082433 ◽

2020 ◽

Vol 21 (1) ◽

pp. 117-138

Author(s):

Jeffery A. Schloss ◽

Richard A. Gibbs ◽

Vinod B. Makhijani ◽

Andre Marziali

Keyword(s):

Dna Sequencing ◽

Human Genome ◽

Human Genome Project ◽

Technology Development ◽

Genome Project ◽

Alternative Methods ◽

Biological Research ◽

Sequencing Technology ◽

Core Technology ◽

The Human Genome Project

When the Human Genome Project was completed in 2003, automated Sanger DNA sequencing with fluorescent dye labels was the dominant technology. Several nascent alternative methods based on older ideas that had not been fully developed were the focus of technical researchers and companies. Funding agencies recognized the dynamic nature of technology development and that, beyond the Human Genome Project, there were growing opportunities to deploy DNA sequencing in biological research. Consequently, the National Human Genome Research Institute of the National Institutes of Health created a program—widely known as the Advanced Sequencing Technology Program—that stimulated all stages of development of new DNA sequencing methods, from innovation to advanced manufacturing and production testing, with the goal of reducing the cost of sequencing a human genome first to $100,000 and then to $1,000. The events of this period provide a powerful example of how judicious funding of academic and commercial partners can rapidly advance core technology developments that lead to profound advances across the scientific landscape.

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