Literature DB >> 29717136

Ancient DNA study reveals HLA susceptibility locus for leprosy in medieval Europeans.

Ben Krause-Kyora1,2, Marcel Nutsua3, Lisa Boehme3, Federica Pierini4, Dorthe Dangvard Pedersen5, Sabin-Christin Kornell3, Dmitriy Drichel6, Marion Bonazzi3, Lena Möbus3, Peter Tarp5, Julian Susat3, Esther Bosse3, Beatrix Willburger7, Alexander H Schmidt7, Jürgen Sauter7, Andre Franke3, Michael Wittig3, Amke Caliebe8, Michael Nothnagel6, Stefan Schreiber3,9, Jesper L Boldsen5, Tobias L Lenz4, Almut Nebel3.   

Abstract

Leprosy, a chronic infectious disease caused by Mycobacterium leprae (M. leprae), was very common in Europe till the 16th century. Here, we perform an ancient DNA study on medieval skeletons from Denmark that show lesions specific for lepromatous leprosy (LL). First, we test the remains for M. leprae DNA to confirm the infection status of the individuals and to assess the bacterial diversity. We assemble 10 complete M. leprae genomes that all differ from each other. Second, we evaluate whether the human leukocyte antigen allele DRB1*15:01, a strong LL susceptibility factor in modern populations, also predisposed medieval Europeans to the disease. The comparison of genotype data from 69 M. leprae DNA-positive LL cases with those from contemporary and medieval controls reveals a statistically significant association in both instances. In addition, we observe that DRB1*15:01 co-occurs with DQB1*06:02 on a haplotype that is a strong risk factor for inflammatory diseases today.

Entities:  

Mesh:

Substances:

Year:  2018        PMID: 29717136      PMCID: PMC5931558          DOI: 10.1038/s41467-018-03857-x

Source DB:  PubMed          Journal:  Nat Commun        ISSN: 2041-1723            Impact factor:   14.919


  63 in total

1.  Illumina sequencing library preparation for highly multiplexed target capture and sequencing.

Authors:  Matthias Meyer; Martin Kircher
Journal:  Cold Spring Harb Protoc       Date:  2010-06

2.  Estimation of the number of nucleotide substitutions when there are strong transition-transversion and G+C-content biases.

Authors:  K Tamura
Journal:  Mol Biol Evol       Date:  1992-07       Impact factor: 16.240

3.  New HLA haplotype frequency reference standards: high-resolution and large sample typing of HLA DR-DQ haplotypes in a sample of European Americans.

Authors:  W Klitz; M Maiers; S Spellman; L A Baxter-Lowe; B Schmeckpeper; T M Williams; M Fernandez-Viña
Journal:  Tissue Antigens       Date:  2003-10

4.  HLA gene and haplotype frequencies in Dutch blood donors.

Authors:  R F Schipper; G M Schreuder; J D'Amaro; M Oudshoorn
Journal:  Tissue Antigens       Date:  1996-11

5.  Fast gapped-read alignment with Bowtie 2.

Authors:  Ben Langmead; Steven L Salzberg
Journal:  Nat Methods       Date:  2012-03-04       Impact factor: 28.547

6.  Genomewide association study of leprosy.

Authors:  Fu-Ren Zhang; Wei Huang; Shu-Min Chen; Liang-Dan Sun; Hong Liu; Yi Li; Yong Cui; Xiao-Xiao Yan; Hai-Tao Yang; Rong-De Yang; Tong-Sheng Chu; Chi Zhang; Lin Zhang; Jian-Wen Han; Gong-Qi Yu; Cheng Quan; Yong-Xiang Yu; Zheng Zhang; Ben-Qing Shi; Lian-Hua Zhang; Hui Cheng; Chang-Yuan Wang; Yan Lin; Hou-Feng Zheng; Xi-An Fu; Xian-Bo Zuo; Qiang Wang; Heng Long; Yi-Ping Sun; Yi-Lin Cheng; Hong-Qing Tian; Fu-Sheng Zhou; Hua-Xu Liu; Wen-Sheng Lu; Su-Min He; Wen-Li Du; Min Shen; Qi-Yi Jin; Ying Wang; Hui-Qi Low; Tantoso Erwin; Ning-Han Yang; Jin-Yong Li; Xin Zhao; Yue-Lin Jiao; Li-Guo Mao; Gang Yin; Zhen-Xia Jiang; Xiao-Dong Wang; Jing-Ping Yu; Zong-Hou Hu; Cui-Hua Gong; Yu-Qiang Liu; Rui-Yu Liu; De-Min Wang; Dong Wei; Jin-Xian Liu; Wei-Kun Cao; Hong-Zhong Cao; Yong-Ping Li; Wei-Guo Yan; Shi-Yu Wei; Kui-Jun Wang; Martin L Hibberd; Sen Yang; Xue-Jun Zhang; Jian-Jun Liu
Journal:  N Engl J Med       Date:  2009-12-16       Impact factor: 91.245

7.  The derived FOXP2 variant of modern humans was shared with Neandertals.

Authors:  Johannes Krause; Carles Lalueza-Fox; Ludovic Orlando; Wolfgang Enard; Richard E Green; Hernán A Burbano; Jean-Jacques Hublin; Catherine Hänni; Javier Fortea; Marco de la Rasilla; Jaume Bertranpetit; Antonio Rosas; Svante Pääbo
Journal:  Curr Biol       Date:  2007-10-18       Impact factor: 10.834

8.  mapDamage2.0: fast approximate Bayesian estimates of ancient DNA damage parameters.

Authors:  Hákon Jónsson; Aurélien Ginolhac; Mikkel Schubert; Philip L F Johnson; Ludovic Orlando
Journal:  Bioinformatics       Date:  2013-04-23       Impact factor: 6.937

9.  A global reference for human genetic variation.

Authors:  Adam Auton; Lisa D Brooks; Richard M Durbin; Erik P Garrison; Hyun Min Kang; Jan O Korbel; Jonathan L Marchini; Shane McCarthy; Gil A McVean; Gonçalo R Abecasis
Journal:  Nature       Date:  2015-10-01       Impact factor: 49.962

10.  Monitoring DNA contamination in handled vs. directly excavated ancient human skeletal remains.

Authors:  Elena Pilli; Alessandra Modi; Ciro Serpico; Alessandro Achilli; Hovirag Lancioni; Barbara Lippi; Francesca Bertoldi; Sauro Gelichi; Martina Lari; David Caramelli
Journal:  PLoS One       Date:  2013-01-25       Impact factor: 3.240

View more
  20 in total

1.  Insights into health and disease from ancient biomolecules.

Authors:  Anne C Stone; Cecil M Lewis; Verena J Schuenemann
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2020-10-05       Impact factor: 6.237

2.  Major histocompatibility complex-associated odour preferences and human mate choice: near and far horizons.

Authors:  Jan Havlíček; Jamie Winternitz; S Craig Roberts
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2020-04-20       Impact factor: 6.237

3.  A 16th century Escherichia coli draft genome associated with an opportunistic bile infection.

Authors:  George S Long; Jennifer Klunk; Ana T Duggan; Madeline Tapson; Valentina Giuffra; Lavinia Gazzè; Antonio Fornaciari; Sebastian Duchene; Gino Fornaciari; Olivier Clermont; Erick Denamur; G Brian Golding; Hendrik Poinar
Journal:  Commun Biol       Date:  2022-06-16

4.  Mass burial genomics reveals outbreak of enteric paratyphoid fever in the Late Medieval trade city Lübeck.

Authors:  Magdalena Haller; Kimberly Callan; Julian Susat; Anna Lena Flux; Alexander Immel; Andre Franke; Alexander Herbig; Johannes Krause; Anne Kupczok; Gerhard Fouquet; Susanne Hummel; Dirk Rieger; Almut Nebel; Ben Krause-Kyora
Journal:  iScience       Date:  2021-04-20

5.  Genomic Characterization of Mycobacterium leprae to Explore Transmission Patterns Identifies New Subtype in Bangladesh.

Authors:  Maria Tió-Coma; Charlotte Avanzi; Els M Verhard; Louise Pierneef; Anouk van Hooij; Andrej Benjak; Johan Chandra Roy; Marufa Khatun; Khorshed Alam; Paul Corstjens; Stewart T Cole; Jan Hendrik Richardus; Annemieke Geluk
Journal:  Front Microbiol       Date:  2020-06-16       Impact factor: 5.640

6.  High mitochondrial diversity of domesticated goats persisted among Bronze and Iron Age pastoralists in the Inner Asian Mountain Corridor.

Authors:  Taylor R Hermes; Michael D Frachetti; Dmitriy Voyakin; Antonina S Yerlomaeva; Arman Z Beisenov; Paula N Doumani Dupuy; Dmitry V Papin; Giedre Motuzaite Matuzeviciute; Jamsranjav Bayarsaikhan; Jean-Luc Houle; Alexey A Tishkin; Almut Nebel; Ben Krause-Kyora; Cheryl A Makarewicz
Journal:  PLoS One       Date:  2020-05-21       Impact factor: 3.240

7.  The mitogenome portrait of Umbria in Central Italy as depicted by contemporary inhabitants and pre-Roman remains.

Authors:  Alessandra Modi; Hovirag Lancioni; Irene Cardinali; Marco R Capodiferro; Nicola Rambaldi Migliore; Abir Hussein; Christina Strobl; Martin Bodner; Lisa Schnaller; Catarina Xavier; Ermanno Rizzi; Laura Bonomi Ponzi; Stefania Vai; Alessandro Raveane; Bruno Cavadas; Ornella Semino; Antonio Torroni; Anna Olivieri; Martina Lari; Luisa Pereira; Walther Parson; David Caramelli; Alessandro Achilli
Journal:  Sci Rep       Date:  2020-07-01       Impact factor: 4.379

8.  Early integration of pastoralism and millet cultivation in Bronze Age Eurasia.

Authors:  Taylor R Hermes; Michael D Frachetti; Paula N Doumani Dupuy; Alexei Mar'yashev; Almut Nebel; Cheryl A Makarewicz
Journal:  Proc Biol Sci       Date:  2019-09-04       Impact factor: 5.349

9.  Targeted analysis of polymorphic loci from low-coverage shotgun sequence data allows accurate genotyping of HLA genes in historical human populations.

Authors:  Federica Pierini; Marcel Nutsua; Lisa Böhme; Onur Özer; Joanna Bonczarowska; Julian Susat; Andre Franke; Almut Nebel; Ben Krause-Kyora; Tobias L Lenz
Journal:  Sci Rep       Date:  2020-04-30       Impact factor: 4.379

Review 10.  Ancient pathogen genomics as an emerging tool for infectious disease research.

Authors:  Maria A Spyrou; Kirsten I Bos; Alexander Herbig; Johannes Krause
Journal:  Nat Rev Genet       Date:  2019-06       Impact factor: 53.242

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.