Positive selection in the genomes of two Papua New Guinean populations at distinct altitude levels
Mathilde André
(1)
,
Nicolas Brucato
(2)
,
Georgi Hudjasov
(1)
,
Vasili Pankratov
(1)
,
Danat Yermakovich
(1)
,
Francesco Montinaro
(1, 3)
,
Rita Kreevan
(1)
,
Jason Kariwiga
(4, 5)
,
John Muke
(6)
,
Anne Boland
(7)
,
Jean-François Deleuze
(7)
,
Vincent Meyer
(7)
,
Nicholas Evans
(8)
,
Murray P Cox
(9, 10)
,
Matthew Leavesley
(4, 11, 12)
,
Michael Dannemann
(1)
,
Tõnis Org
(1)
,
Mait Metspalu
(1)
,
Mayukh Mondal
(1, 13)
,
François-Xavier Ricaut
(2)
1
University of Tartu
2 CRBE - Centre de Recherche sur la Biodiversité et l'Environnement
3 UNIBA - Università degli studi di Bari Aldo Moro = University of Bari Aldo Moro
4 UPNG - University of Papua New Guinea
5 UQ [All campuses : Brisbane, Dutton Park Gatton, Herston, St Lucia and other locations] - The University of Queensland
6 Papua New Guinea (PNG) National Agricultural Research Institute
7 CNRGH - Centre National de Recherche en Génomique Humaine
8 ANU - Australian National University
9 Massey University
10 University of Auckland [Auckland]
11 JCU - James Cook University
12 University of Wollongong [Australia]
13 CAU - Christian-Albrechts-Universität zu Kiel = Christian-Albrechts University of Kiel = Université Christian-Albrechts de Kiel
2 CRBE - Centre de Recherche sur la Biodiversité et l'Environnement
3 UNIBA - Università degli studi di Bari Aldo Moro = University of Bari Aldo Moro
4 UPNG - University of Papua New Guinea
5 UQ [All campuses : Brisbane, Dutton Park Gatton, Herston, St Lucia and other locations] - The University of Queensland
6 Papua New Guinea (PNG) National Agricultural Research Institute
7 CNRGH - Centre National de Recherche en Génomique Humaine
8 ANU - Australian National University
9 Massey University
10 University of Auckland [Auckland]
11 JCU - James Cook University
12 University of Wollongong [Australia]
13 CAU - Christian-Albrechts-Universität zu Kiel = Christian-Albrechts University of Kiel = Université Christian-Albrechts de Kiel
Nicolas Brucato
- Fonction : Auteur
- PersonId : 1332510
- IdHAL : nbrucato
- ORCID : 0000-0003-2529-3607
Vasili Pankratov
- Fonction : Auteur
- PersonId : 1393457
- ORCID : 0000-0001-7928-4402
Danat Yermakovich
- Fonction : Auteur
- PersonId : 1393458
- ORCID : 0000-0002-0712-6939
Francesco Montinaro
- Fonction : Auteur
- PersonId : 1393459
- ORCID : 0000-0002-4506-963X
Anne Boland
- Fonction : Auteur
- PersonId : 757786
- ORCID : 0000-0001-8789-5676
Jean-François Deleuze
- Fonction : Auteur
- PersonId : 1391484
- IdHAL : jean-francois-deleuze
- ORCID : 0000-0002-5358-4463
Nicholas Evans
- Fonction : Auteur
- PersonId : 1393461
- ORCID : 0000-0003-0893-3713
Murray P Cox
- Fonction : Auteur
- PersonId : 1157043
- ORCID : 0000-0003-1936-0236
- IdRef : 24346603X
Matthew Leavesley
- Fonction : Auteur
- PersonId : 1242931
- ORCID : 0000-0002-4612-8304
Michael Dannemann
- Fonction : Auteur
- PersonId : 1393462
- ORCID : 0000-0002-7076-8731
Mayukh Mondal
- Fonction : Auteur
- PersonId : 1393463
- ORCID : 0000-0003-0122-0323
François-Xavier Ricaut
- Fonction : Auteur
- PersonId : 181458
- IdHAL : francois-xavier-ricaut
- ORCID : 0000-0001-7609-7898
- IdRef : 139293590
Résumé
Highlanders and lowlanders of Papua New Guinea have faced distinct environmental stress, such as hypoxia and environment-specific pathogen exposure, respectively. In this study, we explored the top genomics regions and the candidate driver SNPs for selection in these two populations using newly sequenced whole-genomes of 54 highlanders and 74 lowlanders. We identified two candidate SNPs under selection - one in highlanders, associated with red blood cell traits and another in lowlanders, which is associated with white blood cell count – both potentially influencing the heart rate of Papua New Guineans in opposite directions. We also observed four candidate driver SNPs that exhibit linkage disequilibrium with an introgressed haplotype, highlighting the need to explore the possibility of adaptive introgression within these populations. This study reveals that the signatures of positive selection in highlanders and lowlanders of Papua New Guinea align closely with the challenges they face, which are specific to their environments.
Format du dépôt | Fichier |
---|---|
Type de dépôt | Article dans une revue |
Résumé |
en
Highlanders and lowlanders of Papua New Guinea have faced distinct environmental stress, such as hypoxia and environment-specific pathogen exposure, respectively. In this study, we explored the top genomics regions and the candidate driver SNPs for selection in these two populations using newly sequenced whole-genomes of 54 highlanders and 74 lowlanders. We identified two candidate SNPs under selection - one in highlanders, associated with red blood cell traits and another in lowlanders, which is associated with white blood cell count – both potentially influencing the heart rate of Papua New Guineans in opposite directions. We also observed four candidate driver SNPs that exhibit linkage disequilibrium with an introgressed haplotype, highlighting the need to explore the possibility of adaptive introgression within these populations. This study reveals that the signatures of positive selection in highlanders and lowlanders of Papua New Guinea align closely with the challenges they face, which are specific to their environments.
|
Titre |
en
Positive selection in the genomes of two Papua New Guinean populations at distinct altitude levels
|
Auteur(s) |
Mathilde André
1
, Nicolas Brucato
2
, Georgi Hudjasov
1
, Vasili Pankratov
1
, Danat Yermakovich
1
, Francesco Montinaro
1, 3
, Rita Kreevan
1
, Jason Kariwiga
4, 5
, John Muke
6
, Anne Boland
7
, Jean-François Deleuze
7
, Vincent Meyer
7
, Nicholas Evans
8
, Murray P Cox
9, 10
, Matthew Leavesley
4, 11, 12
, Michael Dannemann
1
, Tõnis Org
1
, Mait Metspalu
1
, Mayukh Mondal
1, 13
, François-Xavier Ricaut
2
1
University of Tartu
( 116369 )
- University of Tartu, Ülikooli 18, 50090 TARTU
- Estonie
2
CRBE -
Centre de Recherche sur la Biodiversité et l'Environnement
( 1185086 )
- France
3
UNIBA -
Università degli studi di Bari Aldo Moro = University of Bari Aldo Moro
( 300766 )
- Piazza Umberto I - 70121 Bari
- Italie
4
UPNG -
University of Papua New Guinea
( 1042096 )
- University of Papua New Guinea
P.O Box 320
University Post Office 134
National Capital District
Papua New Guinea
- Papouasie-Nouvelle-Guinée
5
UQ [All campuses : Brisbane, Dutton Park Gatton, Herston, St Lucia and other locations] -
The University of Queensland
( 250752 )
- Brisbane, St Lucia, QLD 4072
- Australie
6
Papua New Guinea (PNG) National Agricultural Research Institute
( 1145029 )
- Papouasie-Nouvelle-Guinée
7
CNRGH -
Centre National de Recherche en Génomique Humaine
( 557361 )
- Evry
- France
8
ANU -
Australian National University
( 74662 )
- The Australian National University Canberra ACT 0200 Australia
- Australie
9
Massey University
( 226209 )
- Palmerston North, Auckland (Albany), Wellington, New Zealand
- Nouvelle-Zélande
10
University of Auckland [Auckland]
( 160272 )
- Private Bag 92019 Auckland 1142
- Nouvelle-Zélande
11
JCU -
James Cook University
( 303225 )
- Australie
12
University of Wollongong [Australia]
( 313498 )
- Northfields Ave, Wollongong NSW 2522, Australie
- Australie
13
CAU -
Christian-Albrechts-Universität zu Kiel = Christian-Albrechts University of Kiel = Université Christian-Albrechts de Kiel
( 462123 )
- Christian-Albrechts-Platz 4, 24118 Kiel, Germany
- Allemagne
|
Date de publication |
2024-04-30
|
Nom de la revue |
|
Volume |
15
|
Page/Identifiant |
3352
|
Numéro |
1
|
Langue du document |
Anglais
|
Vulgarisation |
Non
|
Comité de lecture |
Oui
|
Audience |
Internationale
|
Domaine(s) |
|
DOI | 10.1038/s41467-024-47735-1 |
Pubmed Id | 38688933 |
PubMed Central | PMC11061283 |
Origine :
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