A 28,000 Years Old Cro-Magnon mtDNA Sequence Differs from All Potentially Contaminating Modern Sequences
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{"title"=>"A 28,000 years old cro-magnon mtDNA sequence differs from all potentially contaminating modern sequences", "type"=>"journal", "authors"=>[{"first_name"=>"David", "last_name"=>"Caramelli", "scopus_author_id"=>"6603421409"}, {"first_name"=>"Lucio", "last_name"=>"Milani", "scopus_author_id"=>"24605466200"}, {"first_name"=>"Stefania", "last_name"=>"Vai", "scopus_author_id"=>"24605633700"}, {"first_name"=>"Alessandra", "last_name"=>"Modi", "scopus_author_id"=>"24605453300"}, {"first_name"=>"Elena", "last_name"=>"Pecchioli", "scopus_author_id"=>"23991107600"}, {"first_name"=>"Matteo", "last_name"=>"Girardi", "scopus_author_id"=>"55375750000"}, {"first_name"=>"Elena", "last_name"=>"Pilli", "scopus_author_id"=>"21741500900"}, {"first_name"=>"Martina", "last_name"=>"Lari", "scopus_author_id"=>"8242330000"}, {"first_name"=>"Barbara", "last_name"=>"Lippi", "scopus_author_id"=>"24833405700"}, {"first_name"=>"Annamaria", "last_name"=>"Ronchitelli", "scopus_author_id"=>"57190115595"}, {"first_name"=>"Francesco", "last_name"=>"Mallegni", "scopus_author_id"=>"6701487493"}, {"first_name"=>"Antonella", "last_name"=>"Casoli", "scopus_author_id"=>"7004188346"}, {"first_name"=>"Giorgio", "last_name"=>"Bertorelle", "scopus_author_id"=>"7004271582"}, {"first_name"=>"Guido", "last_name"=>"Barbujani", "scopus_author_id"=>"56231425400"}], "year"=>2008, "source"=>"PLoS ONE", "identifiers"=>{"issn"=>"19326203", "pui"=>"352197505", "doi"=>"10.1371/journal.pone.0002700", "sgr"=>"49949089716", "scopus"=>"2-s2.0-49949089716", "isbn"=>"1932-6203 (Electronic)\\r1932-6203 (Linking)", "pmid"=>"18628960"}, "id"=>"03e353aa-44c8-320e-b188-e975a0aa642b", "abstract"=>"BACKGROUND: DNA sequences from ancient specimens may in fact result from undetected contamination of the ancient specimens by modern DNA, and the problem is particularly challenging in studies of human fossils. Doubts on the authenticity of the available sequences have so far hampered genetic comparisons between anatomically archaic (Neandertal) and early modern (Cro-Magnoid) Europeans. METHODOLOGY/PRINCIPAL FINDINGS: We typed the mitochondrial DNA (mtDNA) hypervariable region I in a 28,000 years old Cro-Magnoid individual from the Paglicci cave, in Italy (Paglicci 23) and in all the people who had contact with the sample since its discovery in 2003. The Paglicci 23 sequence, determined through the analysis of 152 clones, is the Cambridge reference sequence, and cannot possibly reflect contamination because it differs from all potentially contaminating modern sequences. CONCLUSIONS/SIGNIFICANCE: The Paglicci 23 individual carried a mtDNA sequence that is still common in Europe, and which radically differs from those of the almost contemporary Neandertals, demonstrating a genealogical continuity across 28,000 years, from Cro-Magnoid to modern Europeans. Because all potential sources of modern DNA contamination are known, the Paglicci 23 sample will offer a unique opportunity to get insight for the first time into the nuclear genes of early modern Europeans.", "link"=>"http://www.mendeley.com/research/28000-years-old-cromagnon-mtdna-sequence-differs-potentially-contaminating-modern-sequences", "reader_count"=>141, "reader_count_by_academic_status"=>{"Unspecified"=>2, "Professor > Associate Professor"=>11, "Researcher"=>32, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>29, "Student > Postgraduate"=>5, "Student > Master"=>16, "Other"=>11, "Student > Bachelor"=>16, "Lecturer"=>2, "Professor"=>15}, "reader_count_by_user_role"=>{"Unspecified"=>2, "Professor > Associate Professor"=>11, "Researcher"=>32, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>29, "Student > Postgraduate"=>5, "Student > Master"=>16, "Other"=>11, "Student > Bachelor"=>16, "Lecturer"=>2, "Professor"=>15}, "reader_count_by_subject_area"=>{"Unspecified"=>2, "Agricultural and Biological Sciences"=>62, "Arts and Humanities"=>23, "Chemistry"=>2, "Computer Science"=>2, "Earth and Planetary Sciences"=>9, "Economics, Econometrics and Finance"=>1, "Environmental Science"=>1, "Biochemistry, Genetics and Molecular Biology"=>9, "Medicine and Dentistry"=>4, "Neuroscience"=>1, "Physics and Astronomy"=>1, "Psychology"=>2, "Social Sciences"=>21, "Linguistics"=>1}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>4}, "Social Sciences"=>{"Social Sciences"=>21}, "Physics and Astronomy"=>{"Physics and Astronomy"=>1}, "Psychology"=>{"Psychology"=>2}, "Unspecified"=>{"Unspecified"=>2}, "Environmental Science"=>{"Environmental Science"=>1}, "Arts and Humanities"=>{"Arts and Humanities"=>23}, "Chemistry"=>{"Chemistry"=>2}, "Neuroscience"=>{"Neuroscience"=>1}, "Earth and Planetary Sciences"=>{"Earth and Planetary Sciences"=>9}, "Economics, Econometrics and Finance"=>{"Economics, Econometrics and Finance"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>62}, "Computer Science"=>{"Computer Science"=>2}, "Linguistics"=>{"Linguistics"=>1}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>9}}, "reader_count_by_country"=>{"United States"=>4, "United Kingdom"=>2, "Kenya"=>1, "Switzerland"=>1, "Spain"=>1, "Greece"=>1, "Canada"=>2, "Netherlands"=>1, "Brazil"=>1, "Mexico"=>2, "France"=>1, "Chile"=>1, "Australia"=>1, "Germany"=>1}, "group_count"=>1}

Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/457294"], "description"=>"<div><h3>Background</h3><p>DNA sequences from ancient speciments may in fact result from undetected contamination of the ancient specimens by modern DNA, and the problem is particularly challenging in studies of human fossils. Doubts on the authenticity of the available sequences have so far hampered genetic comparisons between anatomically archaic (Neandertal) and early modern (Cro-Magnoid) Europeans.</p><h3>Methodology/Principal Findings</h3><p>We typed the mitochondrial DNA (mtDNA) hypervariable region I in a 28,000 years old Cro-Magnoid individual from the Paglicci cave, in Italy (Paglicci 23) and in all the people who had contact with the sample since its discovery in 2003. The Paglicci 23 sequence, determined through the analysis of 152 clones, is the Cambridge reference sequence, and cannot possibly reflect contamination because it differs from all potentially contaminating modern sequences.</p><h3>Conclusions/Significance:</h3><p>The Paglicci 23 individual carried a mtDNA sequence that is still common in Europe, and which radically differs from those of the almost contemporary Neandertals, demonstrating a genealogical continuity across 28,000 years, from Cro-Magnoid to modern Europeans. Because all potential sources of modern DNA contamination are known, the Paglicci 23 sample will offer a unique opportunity to get insight for the first time into the nuclear genes of early modern Europeans.</p></div>", "links"=>[], "tags"=>["years", "cro-magnon", "mtdna", "differs", "contaminating", "sequences"], "article_id"=>150066, "categories"=>["Evolutionary Biology", "Genetics"], "users"=>["David Caramelli", "Lucio Milani", "Stefania Vai", "Alessandra Modi", "Elena Pecchioli", "Matteo Girardi", "Elena Pilli", "Martina Lari", "Barbara Lippi", "Annamaria Ronchitelli", "Francesco Mallegni", "Antonella Casoli", "Giorgio Bertorelle", "Guido Barbujani"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0002700"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/A_28_000_Years_Old_Cro_Magnon_mtDNA_Sequence_Differs_from_All_Potentially_Contaminating_Modern_Sequences/150066", "title"=>"A 28,000 Years Old Cro-Magnon mtDNA Sequence Differs from All Potentially Contaminating Modern Sequences", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2008-07-16 00:01:06"}
  • {"files"=>["https://ndownloader.figshare.com/files/925929"], "description"=>"<p>DNA was extracted from this fragment and from skull splinters, and all extracts yielded the same HVR I sequence.</p>", "links"=>[], "tags"=>["paglicci", "23"], "article_id"=>596366, "categories"=>["Evolutionary Biology", "Genetics"], "users"=>["David Caramelli", "Lucio Milani", "Stefania Vai", "Alessandra Modi", "Elena Pecchioli", "Matteo Girardi", "Elena Pilli", "Martina Lari", "Barbara Lippi", "Annamaria Ronchitelli", "Francesco Mallegni", "Antonella Casoli", "Giorgio Bertorelle", "Guido Barbujani"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0002700.g001"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Tibia_fragment_of_the_Paglicci_23_specimen_/596366", "title"=>"Tibia fragment of the Paglicci 23 specimen.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2008-07-16 01:46:06"}
  • {"files"=>["https://ndownloader.figshare.com/files/926014"], "description"=>"<p>The network summarizes mtDNA HVR I variation in 13 Neandertals (Nea1 to Nea13) , three Cro-Magnons (CrM1 to CrM3), and seven modern humans who manipulated the Cro-Magnons specimens (six authors of this paper and Carles Laueza-Fox, designated by their initials).</p>", "links"=>[], "tags"=>["relationships", "paglicci", "23", "mtdna"], "article_id"=>596451, "categories"=>["Evolutionary Biology", "Genetics"], "users"=>["David Caramelli", "Lucio Milani", "Stefania Vai", "Alessandra Modi", "Elena Pecchioli", "Matteo Girardi", "Elena Pilli", "Martina Lari", "Barbara Lippi", "Annamaria Ronchitelli", "Francesco Mallegni", "Antonella Casoli", "Giorgio Bertorelle", "Guido Barbujani"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0002700.g002"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Genetic_relationships_among_the_Paglicci_23_and_other_relevant_mtDNA_sequences_/596451", "title"=>"Genetic relationships among the Paglicci 23 and other relevant mtDNA sequences.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2008-07-16 01:47:31"}
  • {"files"=>["https://ndownloader.figshare.com/files/926052"], "description"=>"<p>Mitochondrial HVR1 variation in the seven researchers that have been in physical contact with the samples.</p>", "links"=>[], "tags"=>["hvr1", "researchers", "been"], "article_id"=>596486, "categories"=>["Evolutionary Biology", "Genetics"], "users"=>["David Caramelli", "Lucio Milani", "Stefania Vai", "Alessandra Modi", "Elena Pecchioli", "Matteo Girardi", "Elena Pilli", "Martina Lari", "Barbara Lippi", "Annamaria Ronchitelli", "Francesco Mallegni", "Antonella Casoli", "Giorgio Bertorelle", "Guido Barbujani"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0002700.t001"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Mitochondrial_HVR1_variation_in_the_seven_researchers_that_have_been_in_physical_contact_with_the_samples_/596486", "title"=>"Mitochondrial HVR1 variation in the seven researchers that have been in physical contact with the samples.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2008-07-16 01:48:06"}

PMC Usage Stats | Further Information

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  • {"unique-ip"=>"16", "full-text"=>"53", "pdf"=>"2", "abstract"=>"2", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2017", "month"=>"1"}
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  • {"unique-ip"=>"12", "full-text"=>"48", "pdf"=>"0", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"1", "cited-by"=>"0", "year"=>"2017", "month"=>"3"}
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  • {"unique-ip"=>"30", "full-text"=>"33", "pdf"=>"1", "abstract"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"1", "cited-by"=>"0", "year"=>"2018", "month"=>"3"}
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  • {"unique-ip"=>"26", "full-text"=>"25", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"6"}
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  • {"unique-ip"=>"36", "full-text"=>"38", "pdf"=>"2", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"3"}
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  • {"unique-ip"=>"39", "full-text"=>"40", "pdf"=>"2", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"5"}
  • {"unique-ip"=>"30", "full-text"=>"32", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"1", "cited-by"=>"0", "year"=>"2019", "month"=>"8"}
  • {"unique-ip"=>"45", "full-text"=>"56", "pdf"=>"4", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"1", "cited-by"=>"0", "year"=>"2019", "month"=>"9"}
  • {"unique-ip"=>"47", "full-text"=>"55", "pdf"=>"2", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"2", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"10"}
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Relative Metric

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