Helicobacter pylori's historical journey through Siberia and the Americas.
Helicobacter pylori's historical journey through Siberia and the Americas.
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DOI：
10.1073/pnas.2015523118
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发表时间：
2021-06-22
影响因子：
11.1
通讯作者：
Achtman M
中科院分区：
文献类型：
--
作者：
Moodley Y;Brunelli A;Ghirotto S;Klyubin A;Maady AS;Tyne W;Muñoz-Ramirez ZY;Zhou Z;Manica A;Linz B;Achtman M
西伯利亚和美洲的人口对考古学家、语言学家和人类遗传学家来说都很有趣，但尽管最近取得了重大进展，许多细节仍然存在争议。在这里，我们提供了基于幽门螺杆菌（一种感染50%人类的细菌）内遗传多样性的见解。H.幽门螺杆菌菌株是从欧亚大陆东部和美洲收集的。序列分析表明，西伯利亚包含古代分歧和最近混合的细菌，支持人类在末次冰期最大和最近的人类灭绝的持久性。我们推断，一个单一的迁移横跨白令陆桥，伴随着有效人口规模的急剧减少，其次是亚洲和美洲之间的双向全新世基因流。幽门螺杆菌（Helicobacter pylori）与人类有着共同的进化史，早于非洲以外的散居地，而幽门螺杆菌的地理特异性也与人类有着共同的进化史。幽门螺杆菌群体反映了多种众所周知的人类迁移。我们对H进行了大量采样。从西伯利亚16个不同种族的人群中提取幽门螺杆菌，以帮助解决古代北方欧亚人群是否在末次冰期盛期持续存在于高纬度地区，以及当今西伯利亚人和美洲原住民之间的关系。共对556株进行了培养和多位点序列分型，并对54个代表性草案基因组进行了测序。欧亚大陆和美洲的遗传多样性被分为三个群体：hpAsia2，hpEastAsia和hpNorthAsia。hpNorthAsia与美洲原住民的hspIndigenousAmericas亚群密切相关。西伯利亚细菌被构造成其他五个亚群，其中两个进化通过从hpAsia2和hpNorthAsia的分歧，而三个起源于全新世混合。古代分歧和最近混合的菌株在西伯利亚的存在支持更新世的持久性和全新世的持久性。我们还表明，hspIndigenousAmericas是在整个欧亚大陆北方的人群中流行。hspIndigenousAmericas的进化历史重建使用近似贝叶斯计算，这表明，它殖民新大陆在一个单一的迁移事件与严重的人口瓶颈，其次是低水平的最近混合物横跨白令海峡。
The peopling of Siberia and the Americas is intriguing for archaeologists, linguists, and human geneticists, but despite significant recent developments, many details remain controversial. Here, we provide insights based on genetic diversity within Helicobacter pylori, a bacterium that infects 50% of all humans. H. pylori strains were collected from across eastern Eurasia and the Americas. Sequence analyses indicated that Siberia contains both anciently diverged and recently admixed bacteria, supporting both human persistence over the last glacial maximum and more recent human recolonization. We inferred a single migration across the Bering land bridge, accompanied by a dramatic reduction in effective population size, followed by bidirectional Holocene gene flow between Asia and the Americas. The gastric bacterium Helicobacter pylori shares a coevolutionary history with humans that predates the out-of-Africa diaspora, and the geographical specificities of H. pylori populations reflect multiple well-known human migrations. We extensively sampled H. pylori from 16 ethnically diverse human populations across Siberia to help resolve whether ancient northern Eurasian populations persisted at high latitudes through the last glacial maximum and the relationships between present-day Siberians and Native Americans. A total of 556 strains were cultivated and genotyped by multilocus sequence typing, and 54 representative draft genomes were sequenced. The genetic diversity across Eurasia and the Americas was structured into three populations: hpAsia2, hpEastAsia, and hpNorthAsia. hpNorthAsia is closely related to the subpopulation hspIndigenousAmericas from Native Americans. Siberian bacteria were structured into five other subpopulations, two of which evolved through a divergence from hpAsia2 and hpNorthAsia, while three originated though Holocene admixture. The presence of both anciently diverged and recently admixed strains across Siberia support both Pleistocene persistence and Holocene recolonization. We also show that hspIndigenousAmericas is endemic in human populations across northern Eurasia. The evolutionary history of hspIndigenousAmericas was reconstructed using approximate Bayesian computation, which showed that it colonized the New World in a single migration event associated with a severe demographic bottleneck followed by low levels of recent admixture across the Bering Strait.
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影响因子：
64.8
作者：
Lazaridis, Iosif;Patterson, Nick;Mittnik, Alissa;Renaud, Gabriel;Mallick, Swapan;Kirsanow, Karola;Sudmant, Peter H.;Schraiber, Joshua G.;Castellano, Sergi;Lipson, Mark;Berger, Bonnie;Economou, Christos;Bollongino, Ruth;Fu, Qiaomei;Bos, Kirsten I.;Nordenfelt, Susanne;Li, Heng;de Filippo, Cesare;Pruefer, Kay;Sawyer, Susanna;Posth, Cosimo;Haak, Wolfgang;Hallgren, Fredrik;Fornander, Elin;Rohland, Nadin;Delsate, Dominique;Francken, Michael;Guinet, Jean-Michel;Wahl, Joachim;Ayodo, George;Babiker, Hamza A.;Bailliet, Graciela;Balanovska, Elena;Balanovsky, Oleg;Barrantes, Ramiro;Bedoya, Gabriel;Ben-Ami, Haim;Bene, Judit;Berrada, Fouad;Bravi, Claudio M.;Brisighelli, Francesca;Busby, George B. J.;Cali, Francesco;Churnosov, Mikhail;Cole, David E. C.;Corach, Daniel;Damba, Larissa;van Driem, George;Dryomov, Stanislav;Dugoujon, Jean-Michel;Fedorova, Sardana A.;Romero, Irene Gallego;Gubina, Marina;Hammer, Michael;Henn, Brenna M.;Hervig, Tor;Hodoglugil, Ugur;Jha, Aashish R.;Karachanak-Yankova, Sena;Khusainova, Rita;Khusnutdinova, Elza;Kittles, Rick;Kivisild, Toomas;Klitz, William;Kucinskas, Vaidutis;Kushniarevich, Alena;Laredj, Leila;Litvinov, Sergey;Loukidis, Theologos;Mahley, Robert W.;Melegh, Bela;Metspalu, Ene;Molina, Julio;Mountain, Joanna;Nakkalajarvi, Klemetti;Nesheva, Desislava;Nyambo, Thomas;Osipova, Ludmila;Parik, Jueri;Platonov, Fedor;Posukh, Olga;Romano, Valentino;Rothhammer, Francisco;Rudan, Igor;Ruizbakiev, Ruslan;Sahakyan, Hovhannes;Sajantila, Antti;Salas, Antonio;Starikovskaya, Elena B.;Tarekegn, Ayele;Toncheva, Draga;Turdikulova, Shahlo;Uktveryte, Ingrida;Utevska, Olga;Vasquez, Rene;Villena, Mercedes;Voevoda, Mikhail;Winkler, Cheryl A.;Yepiskoposyan, Levon;Zalloua, Pierre;Zemunik, Tatijana;Cooper, Alan;Capelli, Cristian;Thomas, Mark G.;Ruiz-Linares, Andres;Tishkoff, Sarah A.;Singh, Lalji;Thangaraj, Kumarasamy;Villems, Richard;Comas, David;Sukernik, Rem;Metspalu, Mait;Meyer, Matthias;Eichler, Evan E.;Burger, Joachim;Slatkin, Montgomery;Paeaebo, Svante;Kelso, Janet;Reich, David;Krause, Johannes
通讯作者：
Krause, Johannes
影响因子：
2.8
作者：
Kuzmin, YV;Keates, SG
通讯作者：
Keates, SG
影响因子：
10.7
作者：
Minh BQ;Nguyen MA;von Haeseler A
通讯作者：
von Haeseler A
影响因子：
3.7
作者：
Latifi-Navid, Saeid;Ghorashi, Seyed Ali;Falush, Daniel
通讯作者：
Falush, Daniel
不同地理区域幽门螺杆菌的重组和克隆分组
影响因子：
3.6
作者：
Achtman, M;Azuma, T;van Doorn, LJ
通讯作者：
van Doorn, LJ