DNA Barcoding the Native Flowering Plants and Conifers of Wales
Publication Date
June 06, 2012
Journal
PLOS ONE
Authors
Natasha De Vere, Tim C. G. Rich, Col R. Ford, Sarah A. Trinder, et al
Volume
7
Issue
6
Pages
e37945
DOI
https://dx.plos.org/10.1371/journal.pone.0037945
Publisher URL
http://journals.plos.org/plosone/article?id=10.1371%2Fjournal.pone.0037945
PubMed
http://www.ncbi.nlm.nih.gov/pubmed/22701588
PubMed Central
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3368937
Europe PMC
http://europepmc.org/abstract/MED/22701588
Web of Science
000305348400026
Scopus
84862003016
Mendeley
http://www.mendeley.com/research/dna-barcoding-native-flowering-plants-conifers-wales
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{"title"=>"DNA barcoding the native flowering plants and conifers of wales", "type"=>"journal", "authors"=>[{"first_name"=>"Natasha", "last_name"=>"de Vere", "scopus_author_id"=>"23488430200"}, {"first_name"=>"Tim C.G.", "last_name"=>"Rich", "scopus_author_id"=>"7102734174"}, {"first_name"=>"Col R.", "last_name"=>"Ford", "scopus_author_id"=>"55246627100"}, {"first_name"=>"Sarah A.", "last_name"=>"Trinder", "scopus_author_id"=>"55246592900"}, {"first_name"=>"Charlotte", "last_name"=>"Long", "scopus_author_id"=>"55246812100"}, {"first_name"=>"Chris W.", "last_name"=>"Moore", "scopus_author_id"=>"56426640300"}, {"first_name"=>"Danielle", "last_name"=>"Satterthwaite", "scopus_author_id"=>"55246599700"}, {"first_name"=>"Helena", "last_name"=>"Davies", "scopus_author_id"=>"55246723900"}, {"first_name"=>"Joel", "last_name"=>"Allainguillaume", "scopus_author_id"=>"6507115615"}, {"first_name"=>"Sandra", "last_name"=>"Ronca", "scopus_author_id"=>"55203287400"}, {"first_name"=>"Tatiana", "last_name"=>"Tatarinova", "scopus_author_id"=>"8964265300"}, {"first_name"=>"Hannah", "last_name"=>"Garbett", "scopus_author_id"=>"55246608900"}, {"first_name"=>"Kevin", "last_name"=>"Walker", "scopus_author_id"=>"7202489069"}, {"first_name"=>"Mike J.", "last_name"=>"Wilkinson", "scopus_author_id"=>"7401696031"}], "year"=>2012, "source"=>"PLoS ONE", "identifiers"=>{"sgr"=>"84862003016", "doi"=>"10.1371/journal.pone.0037945", "pui"=>"364979233", "pmid"=>"22701588", "scopus"=>"2-s2.0-84862003016", "issn"=>"19326203", "isbn"=>"1932-6203"}, "id"=>"d26a941a-9ff9-3200-8320-58be547c4bc9", "abstract"=>"We present the first national DNA barcode resource that covers the native flowering plants and conifers for the nation of Wales (1143 species). Using the plant DNA barcode markers rbcL and matK, we have assembled 97.7% coverage for rbcL, 90.2% for matK, and a dual-locus barcode for 89.7% of the native Welsh flora. We have sampled multiple individuals for each species, resulting in 3304 rbcL and 2419 matK sequences. The majority of our samples (85%) are from DNA extracted from herbarium specimens. Recoverability of DNA barcodes is lower using herbarium specimens, compared to freshly collected material, mostly due to lower amplification success, but this is balanced by the increased efficiency of sampling species that have already been collected, identified, and verified by taxonomic experts. The effectiveness of the DNA barcodes for identification (level of discrimination) is assessed using four approaches: the presence of a barcode gap (using pairwise and multiple alignments), formation of monophyletic groups using Neighbour-Joining trees, and sequence similarity in BLASTn searches. These approaches yield similar results, providing relative discrimination levels of 69.4 to 74.9% of all species and 98.6 to 99.8% of genera using both markers. Species discrimination can be further improved using spatially explicit sampling. Mean species discrimination using barcode gap analysis (with a multiple alignment) is 81.6% within 10√ó10 km squares and 93.3% for 2√ó2 km squares. Our database of DNA barcodes for Welsh native flowering plants and conifers represents the most complete coverage of any national flora, and offers a valuable platform for a wide range of applications that require accurate species identification.", "link"=>"http://www.mendeley.com/research/dna-barcoding-native-flowering-plants-conifers-wales", "reader_count"=>181, "reader_count_by_academic_status"=>{"Unspecified"=>3, "Professor > Associate Professor"=>11, "Researcher"=>41, "Student > Doctoral Student"=>2, "Student > Ph. D. 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Student"=>46, "Student > Postgraduate"=>8, "Student > Master"=>24, "Other"=>7, "Student > Bachelor"=>29, "Lecturer"=>3, "Lecturer > Senior Lecturer"=>3, "Professor"=>4}, "reader_count_by_subject_area"=>{"Unspecified"=>7, "Environmental Science"=>16, "Biochemistry, Genetics and Molecular Biology"=>24, "Mathematics"=>1, "Agricultural and Biological Sciences"=>124, "Medicine and Dentistry"=>2, "Physics and Astronomy"=>1, "Chemistry"=>2, "Social Sciences"=>1, "Computer Science"=>1, "Earth and Planetary Sciences"=>2}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>2}, "Chemistry"=>{"Chemistry"=>2}, "Social Sciences"=>{"Social Sciences"=>1}, "Physics and Astronomy"=>{"Physics and Astronomy"=>1}, "Earth and Planetary Sciences"=>{"Earth and Planetary Sciences"=>2}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>124}, "Computer Science"=>{"Computer Science"=>1}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>24}, "Mathematics"=>{"Mathematics"=>1}, "Unspecified"=>{"Unspecified"=>7}, "Environmental Science"=>{"Environmental Science"=>16}}, "reader_count_by_country"=>{"Hungary"=>1, "United States"=>1, "United Kingdom"=>5, "India"=>1, "New Zealand"=>1, "Canada"=>1, "Netherlands"=>1, "Belgium"=>1, "Finland"=>1, "Denmark"=>1, "Italy"=>2, "France"=>1, "Germany"=>1}, "group_count"=>6}

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