%PDF-1.6
%
1 0 obj
<>
endobj
2 0 obj
<>stream
Kaisa Thorell, Koji Yahara, Elvire Berthenet, Daniel J. Lawson, Ikuko Kato, Alfonso Mendez, Cosmeri Rizzato, María Mercedes Bravo, Rumiko Suzuki, Yoshio Yamaoka, Javier Torres, Samuel K. Sheppard, Daniel Falush
Rapid evolution of distinct Helicobacter pylori subpopulations in the Americas
www.plosgenetics.org
www.plosgenetics.org
endstream
endobj
3 0 obj
<>/XObject<>>>/CropBox[0 0 612 792]/MediaBox[0 0 612 792]/Parent 11 0 R/Annots 12 0 R/Contents 13 0 R/TrimBox[0 0 612 792]>>
endobj
12 0 obj
[14 0 R 15 0 R 16 0 R 17 0 R 18 0 R 19 0 R 20 0 R 21 0 R 22 0 R 23 0 R]
endobj
14 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.ref001)>>
endobj
15 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.ref002)>>
endobj
16 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.ref003)>>
endobj
17 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.ref004)>>
endobj
18 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.ref005)>>
endobj
19 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.ref006)>>
endobj
20 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.ref006)>>
endobj
21 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.ref007)>>
endobj
22 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.ref003)>>
endobj
23 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.ref008)>>
endobj
13 0 obj
[24 0 R 25 0 R 26 0 R 27 0 R 28 0 R 29 0 R 30 0 R 31 0 R 32 0 R 33 0 R]
endobj
24 0 obj
<>stream
q
0.955 g
0 w
199.9998 713.9999 m
575.9997 713.9999 l
575.9997 533.0004 l
199.9998 533.0004 l
f*
0.83 0.64 0.02 0 k
563.074 432.9071 m
567.8362 432.9071 l
h
f*
502.2992 380.9197 m
507.0614 380.9197 l
h
f*
368.8441 341.915 m
373.6063 341.915 l
h
f*
285.2787 237.9402 m
290.0409 237.9402 l
h
f*
203.4142 185.8961 m
208.1764 185.8961 l
h
f*
447.0803 159.9307 m
451.8425 159.9307 l
h
f*
203.4142 133.9087 m
208.1764 133.9087 l
h
f*
210.3874 133.9087 m
215.1496 133.9087 l
h
f*
464.3717 107.9433 m
469.1339 107.9433 l
h
f*
471.4016 107.9433 m
476.1638 107.9433 l
h
f*
0 g
1 j
1 J
10 0 0 10 209.9905 696.9826 cm
BT
/F9 1 Tf
1 TL
-0.004 Tc
0 0 Td
(from)Tj
2.2053 0 Td
(generation)Tj
4.507 0 Td
(to)Tj
1.0262 0 Td
(generation.)Tj
4.7338 0 Td
(A)Tj
0.9014 0 Td
(number)Tj
3.4186 0 Td
(of)Tj
1.0148 0 Td
(studies)Tj
2.9877 0 Td
(have)Tj
2.0579 0 Td
(sought)Tj
2.9083 0 Td
(to)Tj
1.0262 0 Td
(link)Tj
1.7801 0 Td
(diversity)Tj
3.6454 0 Td
(in)Tj
/F8 1 Tf
1.0318 0 Td
[()]TJ
/F9 1 Tf
(.)Tj
/F8 1 Tf
-33.2445 -1.2982 Td
[()12()3()4()11(\n)-9()]TJ
/F9 1 Tf
2.4604 0 Td
(to)Tj
1.0261 0 Td
(human)Tj
3.0784 0 Td
(migrations)Tj
4.5581 0 Td
(but)Tj
1.5534 0 Td
(there)Tj
2.262 0 Td
(are)Tj
1.4514 0 Td
(some)Tj
2.33 0 Td
(discordant)Tj
4.4844 0 Td
(signals)Tj
2.9027 0 Td
(such)Tj
2.0636 0 Td
(as)Tj
1.0148 0 Td
(an)Tj
1.2019 0 Td
(out)Tj
1.9445 0 Td
(of)Tj
-32.3317 -1.2983 Td
(Africa)Tj
3.0784 0 Td
(dispersal)Tj
3.7303 0 Td
(within)Tj
2.812 0 Td
(the)Tj
1.474 0 Td
(last)Tj
1.559 0 Td
(few)Tj
1.6158 0 Td
(thousand)Tj
3.9514 0 Td
(years)Tj
2.2621 0 Td
(that)Tj
1.7801 0 Td
(has)Tj
1.5421 0 Td
(left)Tj
1.474 0 Td
(a)Tj
0.6576 0 Td
(much)Tj
2.5171 0 Td
(stronger)Tj
3.566 0 Td
(signal)Tj
2.5398 0 Td
(in)Tj
-34.5597 -1.3039 Td
(bacterial)Tj
3.6283 0 Td
(genomes)Tj
3.7644 0 Td
(than)Tj
2.0296 0 Td
(in)Tj
1.0374 0 Td
(human)Tj
3.0784 0 Td
(ones.)Tj
2.2847 0 Td
(In)Tj
1.1055 0 Td
(order)Tj
2.4208 0 Td
(to)Tj
1.0262 0 Td
(understand)Tj
4.7905 0 Td
(how)Tj
1.9389 0 Td
(such)Tj
2.0579 0 Td
(discrepancies)Tj
-29.1626 -1.2983 Td
(arise,)Tj
2.3017 0 Td
(we)Tj
1.3266 0 Td
(have)Tj
2.0636 0 Td
(investigated)Tj
4.9889 0 Td
(the)Tj
1.4684 0 Td
(evolution)Tj
4.0025 0 Td
(of)Tj
/F8 1 Tf
1.0148 0 Td
[()]TJ
/F9 1 Tf
(.)Tj
/F8 1 Tf
1.1792 0 Td
[()12()3()4()11(\n)-9()]TJ
/F9 1 Tf
2.4604 0 Td
(during)Tj
2.9254 0 Td
(the)Tj
1.4683 0 Td
(recent)Tj
2.7099 0 Td
(colonization)Tj
5.1874 0 Td
(of)Tj
1.0148 0 Td
(the)Tj
-34.1119 -1.2982 Td
(Americas.)Tj
4.2292 0 Td
(We)Tj
1.6101 0 Td
(find)Tj
1.8538 0 Td
(that)Tj
1.7745 0 Td
(bacterial)Tj
3.6283 0 Td
(populations)Tj
4.9493 0 Td
(evolve)Tj
2.7326 0 Td
(quickly)Tj
3.1407 0 Td
(and)Tj
1.7292 0 Td
(can)Tj
1.627 0 Td
(spread)Tj
2.8517 0 Td
(rapidly)Tj
3.0387 0 Td
(to)Tj
-33.1651 -1.3039 Td
(people)Tj
2.8573 0 Td
(of)Tj
1.0148 0 Td
(different)Tj
3.6566 0 Td
(ethnicities.)Tj
4.5468 0 Td
(Distinct)Tj
3.4242 0 Td
(new)Tj
1.8765 0 Td
(bacterial)Tj
3.6227 0 Td
(subpopulations)Tj
6.3495 0 Td
(have)Tj
2.058 0 Td
(formed)Tj
3.1578 0 Td
(in)Tj
-32.5642 -1.2983 Td
(Colombia)Tj
4.1725 0 Td
(from)Tj
2.2054 0 Td
(a)Tj
0.6519 0 Td
(European)Tj
4.1216 0 Td
(source)Tj
2.8346 0 Td
(and)Tj
1.7291 0 Td
(in)Tj
1.0375 0 Td
(Nicaragua)Tj
4.3086 0 Td
(and)Tj
1.7348 0 Td
(the)Tj
1.4684 0 Td
(US)Tj
1.4286 0 Td
(from)Tj
2.2054 0 Td
(African)Tj
3.2371 0 Td
(sources.)Tj
-31.1355 -1.2983 Td
(Genetic)Tj
3.3221 0 Td
(exchange)Tj
3.9288 0 Td
(between)Tj
3.532 0 Td
(bacterial)Tj
3.6226 0 Td
(populations)Tj
4.9493 0 Td
(is)Tj
0.8504 0 Td
(rampant)Tj
3.6453 0 Td
(within)Tj
2.812 0 Td
(Central)Tj
3.2031 0 Td
(and)Tj
1.7291 0 Td
(South)Tj
-31.5947 -1.2982 Td
(America)Tj
3.6453 0 Td
(but)Tj
1.5534 0 Td
(is)Tj
0.8447 0 Td
(uncommon)Tj
4.9209 0 Td
(within)Tj
2.8176 0 Td
(North)Tj
2.6589 0 Td
(America,)Tj
3.8664 0 Td
(which)Tj
2.6532 0 Td
(may)Tj
1.9276 0 Td
(reflect)Tj
2.6929 0 Td
(differences)Tj
4.5694 0 Td
(in)Tj
1.0318 0 Td
(preva-)Tj
-33.1821 -1.304 Td
(lence.)Tj
2.5114 0 Td
(Our)Tj
1.8652 0 Td
(results)Tj
2.812 0 Td
(also)Tj
1.7631 0 Td
(suggest)Tj
3.1238 0 Td
(that)Tj
1.7801 0 Td
(adaptation)Tj
4.4844 0 Td
(of)Tj
1.0148 0 Td
(bacteria)Tj
3.3789 0 Td
(to)Tj
1.0261 0 Td
(particular)Tj
4.1102 0 Td
(human)Tj
3.0784 0 Td
(ethnic)Tj
-30.9484 -1.2982 Td
(groups)Tj
2.9706 0 Td
(may)Tj
1.9276 0 Td
(be)Tj
1.1508 0 Td
(confined)Tj
3.7531 0 Td
(to)Tj
1.0261 0 Td
(a)Tj
0.652 0 Td
(handful)Tj
3.3222 0 Td
(of)Tj
1.0148 0 Td
(genes)Tj
2.4434 0 Td
(involved)Tj
3.6454 0 Td
(in)Tj
1.0374 0 Td
(interaction)Tj
4.6091 0 Td
(with)Tj
1.9956 0 Td
(the)Tj
1.4683 0 Td
(immune)Tj
-31.0164 -1.2983 Td
(system.)Tj
ET
Q
q
1 j
1 J
0 w
11.9999 0 0 11.9999 200.0125 477.0141 cm
BT
/F3 1 Tf
1 TL
-0.0033 Tc
0 0 Td
(Introduction)Tj
ET
Q
q
1 j
1 J
0 w
10 0 0 10 200.0125 460.0062 cm
BT
/F9 1 Tf
1 TL
-0.004 Tc
0 0 Td
(In)Tj
1.1055 0 Td
(1492,)Tj
2.347 0 Td
(Christopher)Tj
5.057 0 Td
(Columbus)Tj
4.3823 0 Td
(initiated)Tj
3.549 0 Td
(a)Tj
0.6576 0 Td
(rapid)Tj
2.3358 0 Td
(colonization)Tj
5.1873 0 Td
(of)Tj
1.0148 0 Td
(the)Tj
1.4684 0 Td
(New)Tj
2.0636 0 Td
(World,)Tj
3.0614 0 Td
(principally)Tj
-32.2297 -1.2982 Td
(by)Tj
1.1792 0 Td
(European)Tj
4.1215 0 Td
(migrants)Tj
3.7814 0 Td
(and)Tj
1.7348 0 Td
(Africans)Tj
3.5943 0 Td
(brought)Tj
3.4242 0 Td
(as)Tj
1.0148 0 Td
(slaves)Tj
2.5002 0 Td
(that)Tj
1.7801 0 Td
(had)Tj
1.7065 0 Td
(catastrophic)Tj
5.0853 0 Td
(consequences)Tj
5.6976 0 Td
(for)Tj
-35.6199 -1.3039 Td
(the)Tj
1.4683 0 Td
(indigenous)Tj
4.6658 0 Td
(population.)Tj
4.8132 0 Td
(The)Tj
1.7801 0 Td
(new)Tj
1.8766 0 Td
(migrants)Tj
3.787 0 Td
(brought)Tj
3.4242 0 Td
(unfamiliar)Tj
4.4221 0 Td
(weapons)Tj
3.6963 0 Td
(and)Tj
1.7291 0 Td
(pathogens)Tj
4.303 0 Td
([)Tj
0.83 0.64 0.02 0 k
(1)Tj
0 g
(],)Tj
-35.9657 -1.2983 Td
(including)Tj
4.0421 0 Td
(new)Tj
1.8766 0 Td
(populations)Tj
4.9492 0 Td
(of)Tj
1.0148 0 Td
(the)Tj
1.4683 0 Td
(stomach-colonizing)Tj
8.1354 0 Td
(bacterium)Tj
/F8 1 Tf
4.2917 0 Td
[()31()15()12()4()7()13()4()6()-4( )11()2(\n)]TJ
5.0739 0 Td
[()12()3()4()11(\n)-9()]TJ
/F9 1 Tf
(.)Tj
/F8 1 Tf
2.6816 0 Td
[()]TJ
/F9 1 Tf
(.)Tj
/F8 1 Tf
1.1849 0 Td
[()12()3()4()11(\n)-9()]TJ
/F9 1 Tf
-34.7185 -1.2983 Td
(can)Tj
1.627 0 Td
(persist)Tj
2.8176 0 Td
(for)Tj
1.3833 0 Td
(decades)Tj
3.3449 0 Td
(in)Tj
1.0318 0 Td
(the)Tj
1.474 0 Td
(stomach,)Tj
3.8154 0 Td
(and)Tj
1.7291 0 Td
(is)Tj
0.8504 0 Td
(often)Tj
2.2847 0 Td
(transmitted)Tj
4.8643 0 Td
(vertically)Tj
3.8437 0 Td
(from)Tj
2.2054 0 Td
(parent)Tj
2.8119 0 Td
(to)Tj
1.0262 0 Td
(child)Tj
-35.1097 -1.3039 Td
(but)Tj
1.5533 0 Td
(can)Tj
1.6271 0 Td
(also)Tj
1.7631 0 Td
(be)Tj
1.1509 0 Td
(acquired)Tj
3.702 0 Td
(from)Tj
2.2054 0 Td
(individuals)Tj
4.6488 0 Td
(in)Tj
1.0374 0 Td
(close)Tj
2.1827 0 Td
(proximity.)Tj
/F8 1 Tf
4.4107 0 Td
[()]TJ
/F9 1 Tf
(.)Tj
/F8 1 Tf
1.1848 0 Td
[()12()3()4()11(\n)-9()]TJ
/F9 1 Tf
2.4548 0 Td
(evolves)Tj
3.0898 0 Td
(rapidly)Tj
3.0387 0 Td
(by)Tj
1.1849 0 Td
(both)Tj
-35.2344 -1.2982 Td
(mutation)Tj
3.9174 0 Td
(and)Tj
1.7348 0 Td
(homologous)Tj
5.193 0 Td
(recombination)Tj
6.1398 0 Td
(with)Tj
2.0013 0 Td
(other)Tj
2.3471 0 Td
(co-colonizing)Tj
5.6919 0 Td
(strains)Tj
2.863 0 Td
([)Tj
0.83 0.64 0.02 0 k
(2)Tj
0 g
(].)Tj
-28.6921 -1.2983 Td
(Studies)Tj
3.101 0 Td
(of)Tj
1.0148 0 Td
(the)Tj
1.474 0 Td
(global)Tj
2.6249 0 Td
(diversity)Tj
3.6453 0 Td
(of)Tj
/F8 1 Tf
1.0148 0 Td
[()]TJ
/F9 1 Tf
(.)Tj
/F8 1 Tf
1.1792 0 Td
[()12()3()4()11(\n)-9()]TJ
/F9 1 Tf
2.4605 0 Td
(have)Tj
2.0579 0 Td
(shown)Tj
2.8517 0 Td
(that)Tj
1.7745 0 Td
(Europeans,)Tj
4.7054 0 Td
(Africans)Tj
3.6 0 Td
(and)Tj
1.7291 0 Td
(Native)Tj
-34.4293 -1.3039 Td
(Americans)Tj
4.5524 0 Td
(carry)Tj
2.2733 0 Td
(genetically)Tj
4.4504 0 Td
(distinct)Tj
3.2145 0 Td
(populations)Tj
4.9492 0 Td
(of)Tj
1.0148 0 Td
(bacteria;)Tj
3.6057 0 Td
(named)Tj
2.9707 0 Td
(hpEurope,)Tj
4.4106 0 Td
(hpAfrica1)Tj
4.2066 0 Td
(and)Tj
-35.6482 -1.2983 Td
(hpAfrica2,)Tj
4.4333 0 Td
(and)Tj
1.7291 0 Td
(hspAmerind,)Tj
5.4935 0 Td
(respectively)Tj
4.8869 0 Td
([)Tj
0.83 0.64 0.02 0 k
(3)Tj
0 g
(].)Tj
1.5988 0 Td
(The)Tj
1.7858 0 Td
(relationships)Tj
5.3461 0 Td
(between)Tj
3.5319 0 Td
(bacterial)Tj
3.6227 0 Td
(populations)Tj
-32.4281 -1.2983 Td
(reflect)Tj
2.6928 0 Td
(differentiation)Tj
5.9811 0 Td
(that)Tj
1.7745 0 Td
(has)Tj
1.542 0 Td
(arisen)Tj
2.6249 0 Td
(during)Tj
2.931 0 Td
(the)Tj
1.4683 0 Td
(complex)Tj
3.6227 0 Td
(migration)Tj
4.2009 0 Td
(history)Tj
3.0047 0 Td
(of)Tj
1.0148 0 Td
(humans,)Tj
3.6623 0 Td
(with)Tj
-34.52 -1.2982 Td
(the)Tj
1.4683 0 Td
(prefix)Tj
2.5512 0 Td
(hp)Tj
2.0522 0 Td
(indicating)Tj
4.2633 0 Td
(a)Tj
0.6576 0 Td
(population)Tj
4.5865 0 Td
(and)Tj
1.7348 0 Td
(hsp)Tj
2.4094 0 Td
(indicating)Tj
4.2689 0 Td
(a)Tj
0.652 0 Td
(subpopulation,)Tj
6.2078 0 Td
(which)Tj
2.6533 0 Td
(are)Tj
1.4513 0 Td
(genet-)Tj
-34.9566 -1.3039 Td
(ically)Tj
2.2903 0 Td
(distinct)Tj
3.2145 0 Td
(from)Tj
2.2053 0 Td
(each)Tj
2.024 0 Td
(other)Tj
2.3527 0 Td
(but)Tj
1.5534 0 Td
(less)Tj
1.61 0 Td
(differentiated)Tj
5.6069 0 Td
(than)Tj
2.0296 0 Td
(populations.)Tj
5.1761 0 Td
(hspAmerind)Tj
5.2667 0 Td
(bacteria)Tj
-33.3295 -1.2983 Td
(are)Tj
1.4456 0 Td
(presumed)Tj
4.1953 0 Td
(to)Tj
1.0261 0 Td
(be)Tj
1.1452 0 Td
(descendants)Tj
5.1023 0 Td
(of)Tj
1.0148 0 Td
(the)Tj
1.4683 0 Td
(strains)Tj
2.863 0 Td
(present)Tj
3.1635 0 Td
(in)Tj
1.0318 0 Td
(the)Tj
1.4683 0 Td
(Americas)Tj
4.0082 0 Td
(prior)Tj
2.2507 0 Td
(to)Tj
1.0261 0 Td
(1492,)Tj
2.3471 0 Td
(and)Tj
1.7348 0 Td
(are)Tj
1.4456 0 Td
(a)Tj
-36.7367 -1.2983 Td
(subpopulation)Tj
5.9867 0 Td
(of)Tj
1.0148 0 Td
(hspEAsia,)Tj
4.1669 0 Td
(which)Tj
2.6475 0 Td
(is)Tj
0.8504 0 Td
(found)Tj
2.6192 0 Td
(in)Tj
1.0318 0 Td
(Asian)Tj
2.5172 0 Td
(countries)Tj
3.9458 0 Td
(such)Tj
2.0636 0 Td
(as)Tj
1.0148 0 Td
(China)Tj
2.6589 0 Td
(and)Tj
1.7291 0 Td
(Japan.)Tj
2.7099 0 Td
(How-)Tj
-34.9566 -1.3039 Td
(ever,)Tj
2.1146 0 Td
(these)Tj
2.2563 0 Td
(strains)Tj
2.863 0 Td
(are)Tj
1.4457 0 Td
(rare)Tj
1.8198 0 Td
(even)Tj
2.075 0 Td
(within)Tj
2.8119 0 Td
(groups)Tj
2.9707 0 Td
(with)Tj
1.9956 0 Td
(substantial)Tj
4.5014 0 Td
(Native)Tj
2.8346 0 Td
(American)Tj
4.1896 0 Td
(ancestry)Tj
3.5376 0 Td
(and)Tj
-35.4158 -1.2982 Td
(may)Tj
1.9275 0 Td
(being)Tj
2.4321 0 Td
(dying)Tj
2.4831 0 Td
(out)Tj
1.5534 0 Td
(in)Tj
1.0318 0 Td
(competition)Tj
5.1024 0 Td
(with)Tj
1.9955 0 Td
(other)Tj
2.3471 0 Td
(strains,)Tj
3.0841 0 Td
(due)Tj
1.7008 0 Td
(to)Tj
1.0261 0 Td
(low)Tj
1.6554 0 Td
(diversity)Tj
3.6453 0 Td
(within)Tj
2.8177 0 Td
(the)Tj
1.4683 0 Td
(popula-)Tj
-34.2706 -1.2983 Td
(tion)Tj
1.8425 0 Td
(or)Tj
1.0941 0 Td
(other)Tj
2.3471 0 Td
(factors)Tj
2.9027 0 Td
([)Tj
0.83 0.64 0.02 0 k
(4)Tj
0 g
(].)Tj
1.6044 0 Td
(hpEurope)Tj
4.1782 0 Td
(bacteria)Tj
3.3789 0 Td
(are)Tj
1.4513 0 Td
(themselves)Tj
4.5581 0 Td
(ancient)Tj
3.1634 0 Td
(hybrids)Tj
3.2372 0 Td
(between)Tj
3.5262 0 Td
(two)Tj
1.7122 0 Td
(popu-)Tj
-34.9963 -1.3039 Td
(lations,)Tj
3.1067 0 Td
(whose)Tj
2.7212 0 Td
(close)Tj
2.1827 0 Td
(relatives)Tj
3.4979 0 Td
(are)Tj
1.4514 0 Td
(currently)Tj
3.8834 0 Td
(found)Tj
2.6192 0 Td
(in)Tj
1.0375 0 Td
(unadmixed)Tj
4.7622 0 Td
(populations)Tj
4.9492 0 Td
(in)Tj
1.0375 0 Td
(North)Tj
2.6589 0 Td
(East)Tj
-33.9078 -1.2983 Td
(Africa)Tj
2.6872 0 Td
(\(hpNEAfrica\))Tj
5.7203 0 Td
(and)Tj
1.7291 0 Td
(central)Tj
2.965 0 Td
(Asia)Tj
1.9672 0 Td
(\(hpAsia2\).)Tj
4.388 0 Td
(The)Tj
1.7859 0 Td
(Tyrolean)Tj
3.8154 0 Td
(Iceman,)Tj
3.4355 0 Td
(O)Tj
0 Tc
0.1758 0.2211 Td
()Tj
-0.004 Tc
0.5726 -0.2211 Td
(tzi,)Tj
1.423 0 Td
(who)Tj
1.9388 0 Td
(died)Tj
1.9673 0 Td
(5300)Tj
-34.5711 -1.2983 Td
(years)Tj
2.2563 0 Td
(ago)Tj
1.6214 0 Td
(in)Tj
1.0318 0 Td
(central)Tj
2.965 0 Td
(Europe,)Tj
3.3562 0 Td
(was)Tj
1.6952 0 Td
(infected)Tj
3.4128 0 Td
(by)Tj
1.1792 0 Td
(an)Tj
1.1963 0 Td
(hpAsia2)Tj
3.4866 0 Td
(strain)Tj
2.4944 0 Td
(with)Tj
1.9899 0 Td
(little)Tj
1.9956 0 Td
(or)Tj
1.0942 0 Td
(no)Tj
1.2699 0 Td
(African)Tj
3.2371 0 Td
(ancestry)Tj
-34.2819 -1.3039 Td
([)Tj
0.83 0.64 0.02 0 k
(5)Tj
0 g
(],)Tj
1.5987 0 Td
(suggesting)Tj
4.405 0 Td
(that)Tj
1.7745 0 Td
(the)Tj
1.474 0 Td
(admixture)Tj
4.354 0 Td
(probably)Tj
3.7643 0 Td
(took)Tj
2.0296 0 Td
(place)Tj
2.2621 0 Td
(within)Tj
2.8119 0 Td
(the)Tj
1.4684 0 Td
(last)Tj
1.5647 0 Td
(few)Tj
1.6157 0 Td
(thousand)Tj
3.9515 0 Td
(years.)Tj
-31.8782 -1.2982 Td
(In)Tj
1.1111 0 Td
(Latin)Tj
2.3074 0 Td
(America,)Tj
3.8665 0 Td
(gastric)Tj
2.8403 0 Td
(cancer)Tj
2.8459 0 Td
(is)Tj
0.8447 0 Td
(a)Tj
0.6577 0 Td
(leading)Tj
3.1294 0 Td
(cause)Tj
2.3924 0 Td
(of)Tj
1.0148 0 Td
(cancer)Tj
2.846 0 Td
(death,)Tj
2.6532 0 Td
(and)Tj
1.7291 0 Td
(some)Tj
2.3358 0 Td
(countries)Tj
3.9458 0 Td
(in)Tj
-35.7163 -1.2983 Td
(the)Tj
1.4683 0 Td
(region)Tj
2.8006 0 Td
(have)Tj
2.0636 0 Td
(among)Tj
2.9934 0 Td
(the)Tj
1.4683 0 Td
(highest)Tj
3.0898 0 Td
(mortality)Tj
3.9174 0 Td
(rates)Tj
2.109 0 Td
(worldwide)Tj
4.456 0 Td
([)Tj
0.83 0.64 0.02 0 k
(6)Tj
0 g
(].)Tj
1.6044 0 Td
(However,)Tj
4.0762 0 Td
(the)Tj
1.4683 0 Td
(mortality)Tj
3.9175 0 Td
(rates)Tj
-35.4328 -1.2983 Td
(vary)Tj
1.9332 0 Td
(in)Tj
1.0374 0 Td
(different)Tj
3.6567 0 Td
(geographic)Tj
4.6205 0 Td
(regions,)Tj
3.3902 0 Td
(both)Tj
2.0579 0 Td
(between)Tj
3.5263 0 Td
(neighboring)Tj
5.1193 0 Td
(countries)Tj
3.9515 0 Td
(and)Tj
1.7291 0 Td
(within)Tj
2.812 0 Td
(nations)Tj
-33.8341 -1.3039 Td
([)Tj
0.83 0.64 0.02 0 k
(6)Tj
0 g
(,)Tj
0.83 0.64 0.02 0 k
(7)Tj
0 g
(].)Tj
2.3017 0 Td
(Several)Tj
3.05 0 Td
(studies)Tj
2.9821 0 Td
(have)Tj
2.0636 0 Td
(been)Tj
2.1203 0 Td
(performed)Tj
4.4673 0 Td
(comparing)Tj
/F8 1 Tf
4.5751 0 Td
[()]TJ
/F9 1 Tf
(.)Tj
/F8 1 Tf
1.1849 0 Td
[()12()3()4()11(\n)-9()]TJ
/F9 1 Tf
2.4548 0 Td
(ancestry)Tj
3.5376 0 Td
(in)Tj
1.0375 0 Td
(high-)Tj
2.3527 0 Td
(and)Tj
1.7348 0 Td
(low)Tj
1.6554 0 Td
(risk)Tj
-35.5178 -1.2983 Td
(areas)Tj
2.245 0 Td
(and)Tj
1.7291 0 Td
(have)Tj
2.0579 0 Td
(linked)Tj
2.7326 0 Td
(phylogeographic)Tj
6.8712 0 Td
(origin)Tj
2.6475 0 Td
(of)Tj
1.0148 0 Td
(the)Tj
1.4683 0 Td
(bacteria,)Tj
3.6057 0 Td
(as)Tj
1.0148 0 Td
(well)Tj
1.8198 0 Td
(as)Tj
1.0148 0 Td
(discordant)Tj
4.4844 0 Td
(origin)Tj
2.6475 0 Td
(of)Tj
-35.3534 -1.2982 Td
(bacteria)Tj
3.3788 0 Td
(and)Tj
1.7291 0 Td
(host,)Tj
2.1374 0 Td
(to)Tj
1.0261 0 Td
(increased)Tj
4.0025 0 Td
(risk)Tj
1.7121 0 Td
(of)Tj
1.0148 0 Td
(gastric)Tj
2.8403 0 Td
(cancer)Tj
2.846 0 Td
(development)Tj
5.4084 0 Td
([)Tj
0.83 0.64 0.02 0 k
(3)Tj
0 g
(,)Tj
0.83 0.64 0.02 0 k
(8)Tj
0 g
(].)Tj
2.3018 0 Td
(However,)Tj
4.0818 0 Td
(these)Tj
2.2507 0 Td
(studies)Tj
-34.7298 -1.3039 Td
(have)Tj
2.0579 0 Td
(been)Tj
2.126 0 Td
(performed)Tj
4.4673 0 Td
(using)Tj
2.3868 0 Td
(MLST)Tj
2.7382 0 Td
(analysis)Tj
3.3279 0 Td
(that,)Tj
2.0012 0 Td
(being)Tj
2.4322 0 Td
(based)Tj
2.4717 0 Td
(only)Tj
1.9786 0 Td
(on)Tj
1.2756 0 Td
(seven)Tj
2.4321 0 Td
(housekeeping)Tj
-29.6955 -1.2983 Td
(genes,)Tj
2.6645 0 Td
(is)Tj
0.8504 0 Td
(limited)Tj
3.0671 0 Td
(in)Tj
1.0374 0 Td
(its)Tj
1.1452 0 Td
(resolution)Tj
4.2803 0 Td
(compared)Tj
4.2406 0 Td
(to)Tj
1.0261 0 Td
(whole-genome)Tj
6.1455 0 Td
(comparisons.)Tj
ET
Q
q
1 j
1 J
0 w
576 737.1 m
36 737.1 l
36 737.6 l
576 737.6 l
f*
36 741.2598 133.6819 23.6976 re
W* n
q
133.6252 0 0 23.6409 36 741.3165 cm
q
/I0 Do
Q
Q
Q
q
0 0 612 792 re
W* n
1 j
1 J
0 w
7.9999 0 0 7.9999 383.4708 745.7952 cm
BT
/F7 1 Tf
1 TL
-0.005 Tc
0 0 Td
(Helicobacter)Tj
5.6764 0 Td
(pylori)Tj
/F0 1 Tf
2.5583 0 Td
(evolution)Tj
4.1386 0 Td
(in)Tj
0.9779 0 Td
(post-Columbi)Tj
5.7898 0 Td
(an)Tj
1.3111 0 Td
(America)Tj
ET
Q
q
1 j
1 J
0 w
36 48.0002 m
576 48.0002 l
576 47.5002 l
36 47.5002 l
f*
7.9999 0 0 7.9999 36 36 cm
BT
/F0 1 Tf
1 TL
-0.005 Tc
0 0 Td
(PLOS)Tj
2.8559 0 Td
(Genetics)Tj
4.1102 0 Td
(|)Tj
0.4749 0 Td
(DOI:10.137)Tj
5.0315 0 Td
(1/journal.pg)Tj
5.1237 0 Td
(en.1006546)Tj
6.1866 0 Td
(February)Tj
4.1528 0 Td
(23,)Tj
1.5874 0 Td
(2017)Tj
35.6176 0 Td
(2)Tj
0.7654 0 Td
(/)Tj
ET
endstream
endobj
25 0 obj
<>stream
endstream
endobj
26 0 obj
<>stream
endstream
endobj
27 0 obj
<>stream
endstream
endobj
28 0 obj
<>stream
endstream
endobj
29 0 obj
<>stream
endstream
endobj
30 0 obj
<>stream
endstream
endobj
31 0 obj
<>stream
endstream
endobj
32 0 obj
<>stream
endstream
endobj
33 0 obj
<>stream
BT
66.402 0 Td
(21)Tj
ET
Q
endstream
endobj
34 0 obj
<>/XObject<>>>/CropBox[0 0 612 792]/MediaBox[0 0 612 792]/Parent 11 0 R/Annots 36 0 R/Contents 37 0 R/TrimBox[0 0 612 792]>>
endobj
36 0 obj
[38 0 R 39 0 R 40 0 R 41 0 R 42 0 R 43 0 R 44 0 R 45 0 R 46 0 R 47 0 R]
endobj
38 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.ref009)>>
endobj
39 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.ref010)>>
endobj
40 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.s006)>>
endobj
41 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.ref009)>>
endobj
42 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.ref011)>>
endobj
43 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.g001)>>
endobj
44 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.g002)>>
endobj
45 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.g002)>>
endobj
46 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.g001)>>
endobj
47 0 obj
<>/Border[0 0 0]/Dest(Rpgen.1006546.s001)>>
endobj
37 0 obj
[48 0 R 49 0 R 50 0 R 51 0 R 52 0 R 53 0 R 54 0 R 55 0 R 56 0 R 57 0 R]
endobj
48 0 obj
<>stream
q
0.83 0.64 0.02 0 k
424.4031 583.1433 m
429.052 583.1433 l
h
f*
431.2063 583.1433 m
440.5039 583.1433 l
h
f*
436.4787 570.1039 m
469.7008 570.1039 l
h
f*
501.9024 531.0992 m
506.5512 531.0992 l
h
f*
527.5276 466.1291 m
536.8252 466.1291 l
h
f*
320.2583 258.1228 m
339.5906 258.1228 l
h
f*
231.4205 206.1354 m
257.4992 206.1354 l
h
f*
326.4378 206.1354 m
351.4961 206.1354 l
h
f*
345.4299 180.1134 m
364.7622 180.1134 l
h
f*
424.4598 154.148 m
448.4976 154.148 l
h
f*
0 g
1 j
1 J
0 w
10 0 0 10 211.9748 707.4141 cm
BT
/F9 1 Tf
1 TL
-0.004 Tc
0 0 Td
(To)Tj
1.3379 0 Td
(investigate)Tj
4.4617 0 Td
(if)Tj
0.7767 0 Td
(American)Tj
/F8 1 Tf
4.1896 0 Td
[()]TJ
/F9 1 Tf
(.)Tj
/F8 1 Tf
1.1848 0 Td
[()12()3()4()11(\n)-9()]TJ
/F9 1 Tf
2.4605 0 Td
(strains)Tj
2.8573 0 Td
(have)Tj
2.0636 0 Td
(differentiated)Tj
5.6069 0 Td
(from)Tj
2.2053 0 Td
(those)Tj
2.3358 0 Td
(found)Tj
2.6192 0 Td
(in)Tj
1.0374 0 Td
(the)Tj
1.4684 0 Td
(Old)Tj
-35.8013 -1.3039 Td
(World)Tj
2.8346 0 Td
(by)Tj
1.1848 0 Td
(mixture,)Tj
3.617 0 Td
(genetic)Tj
3.0671 0 Td
(drift)Tj
1.9729 0 Td
(or)Tj
1.0998 0 Td
(natural)Tj
3.0784 0 Td
(selection,)Tj
3.9458 0 Td
(we)Tj
1.3266 0 Td
(combined)Tj
4.2463 0 Td
(hundreds)Tj
4.0365 0 Td
(of)Tj
1.0148 0 Td
(publicly)Tj
3.4072 0 Td
(avail-)Tj
-34.8318 -1.2982 Td
(able)Tj
1.8311 0 Td
(genomes)Tj
3.7644 0 Td
(with)Tj
2.0012 0 Td
(over)Tj
1.9729 0 Td
(hundred)Tj
3.6737 0 Td
(newly)Tj
2.5795 0 Td
(sequenced)Tj
4.388 0 Td
(genomes)Tj
3.7644 0 Td
(of)Tj
/F8 1 Tf
1.0148 0 Td
[()]TJ
/F9 1 Tf
(.)Tj
/F8 1 Tf
1.1849 0 Td
[()12()3()4()11(\n)-9()]TJ
/F9 1 Tf
2.4548 0 Td
(sampled)Tj
3.5546 0 Td
(in)Tj
1.0318 0 Td
(Latin)Tj
-33.2161 -1.2983 Td
(America)Tj
3.6396 0 Td
(\(Mexico,)Tj
3.7644 0 Td
(Nicaragua,)Tj
4.5411 0 Td
(and)Tj
1.7291 0 Td
(Colombia\),)Tj
4.7395 0 Td
(Europe,)Tj
3.3562 0 Td
(and)Tj
1.7348 0 Td
(Central)Tj
3.2031 0 Td
(Asia.)Tj
2.194 0 Td
(We)Tj
1.6044 0 Td
(show)Tj
2.3017 0 Td
(that)Tj
1.7802 0 Td
(the)Tj
-34.5881 -1.2983 Td
(American)Tj
4.1895 0 Td
(bacterial)Tj
3.6283 0 Td
(populations)Tj
4.9493 0 Td
(have)Tj
2.0579 0 Td
(undergone)Tj
4.5638 0 Td
(substantial)Tj
4.5014 0 Td
(evolution)Tj
4.0025 0 Td
(within)Tj
2.8119 0 Td
(500)Tj
1.6498 0 Td
(years)Tj
2.262 0 Td
(and)Tj
-34.6164 -1.3039 Td
(our)Tj
1.627 0 Td
(results)Tj
2.8063 0 Td
(also)Tj
1.7688 0 Td
(suggest)Tj
3.1238 0 Td
(that)Tj
/F8 1 Tf
1.7744 0 Td
[()]TJ
/F9 1 Tf
(.)Tj
/F8 1 Tf
1.1849 0 Td
[()12()3()4()11(\n)-9()]TJ
/F9 1 Tf
2.4548 0 Td
(transmission)Tj
5.3688 0 Td
(biology)Tj
3.1691 0 Td
(has)Tj
1.5477 0 Td
(been)Tj
2.1203 0 Td
(as)Tj
1.0148 0 Td
(important)Tj
4.2803 0 Td
(as)Tj
1.0148 0 Td
(human)Tj
-33.2558 -1.2982 Td
(migration)Tj
4.1952 0 Td
(in)Tj
1.0375 0 Td
(determining)Tj
5.1817 0 Td
(extant)Tj
2.6872 0 Td
(patterns)Tj
3.4696 0 Td
(of)Tj
1.0148 0 Td
(diversity.)Tj
ET
Q
q
1 j
1 J
0 w
11.9999 0 0 11.9999 200.0125 601.1716 cm
BT
/F3 1 Tf
1 TL
-0.0033 Tc
0 0 Td
(Results)Tj
ET
Q
q
1 j
1 J
0 w
10 0 0 10 200.0125 584.2204 cm
BT
/F9 1 Tf
1 TL
-0.014 Tc
0 0 Td
(We)Tj
1.5873 0 Td
(used)Tj
2.0183 0 Td
(the)Tj
1.44 0 Td
(Chromopainter/fine)Tj
7.9369 0 Td
(STRUCTURE)Tj
5.777 0 Td
(pipeline)Tj
3.3505 0 Td
([)Tj
0.83 0.64 0.02 0 k
(9)Tj
0 g
(,)Tj
0.83 0.64 0.02 0 k
(10)Tj
0 g
(])Tj
2.4889 0 Td
(to)Tj
1.0091 0 Td
(assess)Tj
2.4604 0 Td
(the)Tj
1.44 0 Td
(population)Tj
4.4901 0 Td
(structure)Tj
-33.9985 -1.3039 Td
(within)Tj
2.7495 0 Td
(our)Tj
1.5988 0 Td
(global)Tj
2.5625 0 Td
(collection)Tj
4.0138 0 Td
(of)Tj
0.9921 0 Td
(isolates)Tj
3.0387 0 Td
(\(n)Tj
1.0885 0 Td
(=)Tj
0.7937 0 Td
(401,)Tj
1.8312 0 Td
(described)Tj
3.9628 0 Td
(in)Tj
0.83 0.64 0.02 0 k
1.0148 0 Td
(S1)Tj
1.1509 0 Td
(Table)Tj
0 g
(\).)Tj
2.9366 0 Td
(Insight)Tj
2.9594 0 Td
(into)Tj
1.8028 0 Td
(the)Tj
1.44 0 Td
(ancestry)Tj
-33.9361 -1.2982 Td
(of)Tj
0.9921 0 Td
(each)Tj
1.9899 0 Td
(isolate)Tj
2.6872 0 Td
(is)Tj
0.8277 0 Td
(obtained)Tj
3.651 0 Td
(by)Tj
1.1622 0 Td
(treating)Tj
3.2485 0 Td
(it)Tj
0.7653 0 Td
(as)Tj
0.9978 0 Td
(a)Tj
0.6407 0 Td
(recipient)Tj
4.4333 0 Td
(and)Tj
1.7008 0 Td
(using)Tj
2.3414 0 Td
(Chromopainter)Tj
6.3439 0 Td
(to)Tj
1.0091 0 Td
(fit)Tj
1.0432 0 Td
(it)Tj
0.7653 0 Td
(as)Tj
0.9921 0 Td
(a)Tj
-35.5915 -1.2983 Td
(mosaic)Tj
2.9706 0 Td
(of)Tj
0.9978 0 Td
(DNA)Tj
2.3414 0 Td
(chunks,)Tj
3.2655 0 Td
(i.e.)Tj
1.321 0 Td
(sets)Tj
1.6214 0 Td
(of)Tj
0.9978 0 Td
(contiguous)Tj
4.5524 0 Td
(SNPs,)Tj
2.5285 0 Td
(from)Tj
2.1656 0 Td
(a)Tj
0.6406 0 Td
(donor)Tj
3.0161 0 Td
(panel)Tj
2.7212 0 Td
(of)Tj
0.9921 0 Td
(other)Tj
2.3018 0 Td
(genomes.)Tj
-32.4338 -1.3039 Td
(The)Tj
1.7517 0 Td
(painting)Tj
3.4866 0 Td
(can)Tj
1.5931 0 Td
(be)Tj
1.1339 0 Td
(interpreted)Tj
4.5807 0 Td
(genealogically)Tj
5.6636 0 Td
(as)Tj
0.9978 0 Td
(described)Tj
3.9628 0 Td
(in)Tj
1.0148 0 Td
(more)Tj
2.3017 0 Td
(detail)Tj
2.3528 0 Td
(in)Tj
1.0204 0 Td
([)Tj
0.83 0.64 0.02 0 k
(9)Tj
0 g
(],)Tj
1.5591 0 Td
(namely)Tj
3.084 0 Td
(in)Tj
1.0205 0 Td
(the)Tj
-35.5235 -1.2983 Td
(local)Tj
2.0239 0 Td
(genealogy)Tj
4.0988 0 Td
(for)Tj
1.355 0 Td
(any)Tj
1.6271 0 Td
(of)Tj
0.9978 0 Td
(the)Tj
1.44 0 Td
(sites)Tj
1.8821 0 Td
(within)Tj
2.7496 0 Td
(a)Tj
0.6463 0 Td
(given)Tj
2.3301 0 Td
(chunk,)Tj
2.9083 0 Td
(the)Tj
1.44 0 Td
(most)Tj
2.1657 0 Td
(recent)Tj
2.6475 0 Td
(coalescence)Tj
4.7508 0 Td
(involving)Tj
-33.063 -1.2982 Td
(the)Tj
1.4399 0 Td
(recipient)Tj
3.668 0 Td
(individual)Tj
4.1896 0 Td
(is)Tj
0.8277 0 Td
(with)Tj
1.9559 0 Td
(the)Tj
1.44 0 Td
(donor)Tj
2.6306 0 Td
(individual)Tj
4.1895 0 Td
(for)Tj
1.355 0 Td
(that)Tj
1.7405 0 Td
(chunk.)Tj
2.9083 0 Td
(Each)Tj
2.1373 0 Td
(chunk)Tj
2.6929 0 Td
(thus)Tj
1.8935 0 Td
(provides)Tj
-33.0687 -1.304 Td
(information)Tj
4.9662 0 Td
(on)Tj
1.2529 0 Td
(the)Tj
1.44 0 Td
(most)Tj
2.1657 0 Td
(recent)Tj
2.6532 0 Td
(clonal)Tj
2.5625 0 Td
(relationships)Tj
5.2214 0 Td
(and/or)Tj
2.88 0 Td
(genetic)Tj
2.999 0 Td
(exchange)Tj
3.8494 0 Td
(between)Tj
3.4583 0 Td
(different)Tj
-33.4486 -1.2982 Td
(strains)Tj
2.7892 0 Td
(in)Tj
1.0148 0 Td
(the)Tj
1.44 0 Td
(sample.)Tj
3.1805 0 Td
(In)Tj
/F8 1 Tf
1.0885 0 Td
[()]TJ
/F9 1 Tf
(.)Tj
/F8 1 Tf
1.1622 0 Td
[()12()3()4()11(\n)-9()]TJ
/F9 1 Tf
2.3981 0 Td
(recombination)Tj
6.0094 0 Td
(rates)Tj
2.0579 0 Td
(are)Tj
1.423 0 Td
(very)Tj
1.8822 0 Td
(high)Tj
1.9672 0 Td
(and)Tj
1.7008 0 Td
(unless)Tj
2.6305 0 Td
(individuals)Tj
4.5354 0 Td
(in)Tj
-35.2797 -1.2983 Td
(close)Tj
2.1316 0 Td
(proximity)Tj
4.0989 0 Td
(are)Tj
1.4173 0 Td
(sampled,)Tj
3.6963 0 Td
(it)Tj
0.7654 0 Td
(is)Tj
0.8277 0 Td
(rare)Tj
1.7801 0 Td
(to)Tj
1.0035 0 Td
(find)Tj
1.8085 0 Td
(clear)Tj
2.0693 0 Td
(evidence)Tj
3.634 0 Td
(of)Tj
0.9977 0 Td
(direct)Tj
2.4718 0 Td
(clonal)Tj
2.5625 0 Td
(descent)Tj
3.1578 0 Td
([)Tj
0.83 0.64 0.02 0 k
(11)Tj
0 g
(].)Tj
-0.004 Tc
-31.2262 -1.2983 Td
(We)Tj
1.61 0 Td
(used)Tj
2.0636 0 Td
(two)Tj
1.7065 0 Td
(different)Tj
3.6567 0 Td
(donor)Tj
2.6815 0 Td
(panels.)Tj
2.9764 0 Td
(A)Tj
0.9014 0 Td
(first)Tj
1.8085 0 Td
(consisted)Tj
3.9344 0 Td
(only)Tj
1.9786 0 Td
(of)Tj
1.0148 0 Td
(Old)Tj
1.7405 0 Td
(World)Tj
2.8403 0 Td
(\(European,)Tj
4.6828 0 Td
(Afri-)Tj
-34.7922 -1.3039 Td
(can)Tj
1.627 0 Td
(and)Tj
1.7291 0 Td
(Asian\))Tj
2.8517 0 Td
(isolates.)Tj
3.3448 0 Td
(Since)Tj
2.3585 0 Td
(we)Tj
1.3266 0 Td
(expect)Tj
2.7722 0 Td
(that)Tj
1.7802 0 Td
(almost)Tj
2.8856 0 Td
(all)Tj
1.1452 0 Td
(of)Tj
1.0148 0 Td
(the)Tj
1.4683 0 Td
(gene)Tj
2.0807 0 Td
(flow)Tj
1.9445 0 Td
(historically)Tj
4.6261 0 Td
(has)Tj
1.5421 0 Td
(been)Tj
-34.4974 -1.2982 Td
(from)Tj
2.2053 0 Td
(the)Tj
1.4683 0 Td
(Old)Tj
1.7405 0 Td
(World)Tj
2.8403 0 Td
(to)Tj
1.0261 0 Td
(the)Tj
1.4684 0 Td
(New)Tj
2.0636 0 Td
(World,)Tj
3.0614 0 Td
(using)Tj
2.3924 0 Td
(an)Tj
1.2019 0 Td
(Old)Tj
1.7404 0 Td
(World)Tj
2.8347 0 Td
(panel)Tj
2.3924 0 Td
(allows)Tj
2.6986 0 Td
(us)Tj
1.1055 0 Td
(to)Tj
1.0261 0 Td
(investigate)Tj
4.4617 0 Td
(the)Tj
-35.7276 -1.2983 Td
(origins)Tj
3.0047 0 Td
(of)Tj
1.0148 0 Td
(each)Tj
2.0295 0 Td
(New)Tj
2.0637 0 Td
(World)Tj
/F8 1 Tf
2.8403 0 Td
[()]TJ
/F9 1 Tf
(.)Tj
/F8 1 Tf
1.1792 0 Td
[()12()3()4()11(\n)-9()]TJ
/F9 1 Tf
(,)Tj
2.6872 0 Td
(without)Tj
3.3278 0 Td
(the)Tj
1.4684 0 Td
(complication)Tj
5.4821 0 Td
(of)Tj
1.0148 0 Td
(determining)Tj
5.1761 0 Td
(how)Tj
1.9389 0 Td
(the)Tj
1.474 0 Td
(strains)Tj
-34.7015 -1.3039 Td
(are)Tj
1.4456 0 Td
(related)Tj
2.948 0 Td
(to)Tj
1.0262 0 Td
(each)Tj
2.0239 0 Td
(other.)Tj
2.5738 0 Td
(Although)Tj
4.0082 0 Td
(we)Tj
1.3266 0 Td
(are)Tj
1.4457 0 Td
(principally)Tj
4.5127 0 Td
(interested)Tj
4.1669 0 Td
(in)Tj
1.0318 0 Td
(gene)Tj
2.0806 0 Td
(flow)Tj
1.9502 0 Td
(within)Tj
2.812 0 Td
(the)Tj
1.4683 0 Td
(last)Tj
-34.8205 -1.2983 Td
(500)Tj
1.644 0 Td
(years,)Tj
2.4888 0 Td
(hspAmerind)Tj
5.2724 0 Td
(strains)Tj
2.8573 0 Td
(are)Tj
1.4514 0 Td
(excluded)Tj
3.787 0 Td
(from)Tj
2.2054 0 Td
(the)Tj
1.4683 0 Td
(donor)Tj
2.6816 0 Td
(set)Tj
1.3039 0 Td
(because)Tj
3.3165 0 Td
(many)Tj
2.4775 0 Td
(of)Tj
1.0148 0 Td
(the)Tj
1.4683 0 Td
(strains)Tj
-33.4372 -1.2982 Td
(have)Tj
2.0579 0 Td
(undergone)Tj
4.5637 0 Td
(post-Columbian)Tj
6.7748 0 Td
(admixture)Tj
4.354 0 Td
(with)Tj
1.9956 0 Td
(other)Tj
2.3527 0 Td
(populations.)Tj
5.176 0 Td
(The)Tj
1.7802 0 Td
(DNA)Tj
2.3754 0 Td
(in)Tj
1.0375 0 Td
(any)Tj
1.6554 0 Td
(case)Tj
-34.1232 -1.304 Td
(originated)Tj
4.3313 0 Td
(from)Tj
2.2053 0 Td
(the)Tj
1.4683 0 Td
(Old)Tj
1.7405 0 Td
(World,)Tj
3.0614 0 Td
(albeit)Tj
2.3981 0 Td
(probably)Tj
/F15 1 Tf
0 Tc
3.7644 0 Td
(>)Tj
/F9 1 Tf
-0.004 Tc
0.9921 0 Td
(10,000)Tj
2.8233 0 Td
(years)Tj
2.262 0 Td
(ago.)Tj
-23.8505 -1.2982 Td
(The)Tj
1.7858 0 Td
(second)Tj
3.0104 0 Td
(global)Tj
2.6248 0 Td
(painting)Tj
3.566 0 Td
(panel)Tj
2.3924 0 Td
(includes)Tj
3.5433 0 Td
(all)Tj
1.1452 0 Td
(New)Tj
2.0636 0 Td
(World)Tj
2.8403 0 Td
(strains,)Tj
3.0841 0 Td
(apart)Tj
2.279 0 Td
(from)Tj
2.2053 0 Td
(the)Tj
1.4684 0 Td
(specific)Tj
-33.2048 -1.2983 Td
(individual)Tj
4.2859 0 Td
(being)Tj
2.4321 0 Td
(painted.)Tj
3.4639 0 Td
(Many,)Tj
2.7723 0 Td
(although)Tj
3.753 0 Td
(not)Tj
1.5761 0 Td
(all)Tj
1.1452 0 Td
(of)Tj
1.0148 0 Td
(the)Tj
1.4683 0 Td
(chunks)Tj
3.1068 0 Td
(inferred)Tj
3.4412 0 Td
(to)Tj
1.0261 0 Td
(be)Tj
1.1509 0 Td
(donated)Tj
3.4866 0 Td
(by)Tj
1.1792 0 Td
(other)Tj
-35.3024 -1.2983 Td
(New)Tj
2.0636 0 Td
(World)Tj
2.8346 0 Td
(strains)Tj
2.863 0 Td
(in)Tj
1.0374 0 Td
(this)Tj
1.6725 0 Td
(painting)Tj
3.5659 0 Td
(will)Tj
1.6668 0 Td
(represent)Tj
3.9571 0 Td
(coalescent)Tj
4.3087 0 Td
(events)Tj
2.7269 0 Td
(that)Tj
1.7801 0 Td
(happened)Tj
4.1386 0 Td
(in)Tj
1.0375 0 Td
(the)Tj
1.4683 0 Td
(New)Tj
-35.121 -1.3039 Td
(World.)Tj
3.0613 0 Td
(Therefore)Tj
4.167 0 Td
(using)Tj
2.3924 0 Td
(this)Tj
1.6724 0 Td
(painting)Tj
3.566 0 Td
(panel)Tj
2.3867 0 Td
(allows)Tj
2.6986 0 Td
(us)Tj
1.1112 0 Td
(to)Tj
1.0261 0 Td
(investigate)Tj
4.4617 0 Td
(recent)Tj
2.7099 0 Td
(demography)Tj
5.2667 0 Td
(within)Tj
-34.52 -1.2982 Td
(the)Tj
1.4683 0 Td
(New)Tj
2.0636 0 Td
(World.)Tj
-0.01 Tc
-2.3357 -1.2983 Td
(fineSTRUCTURE)Tj
7.319 0 Td
(uses)Tj
1.8708 0 Td
(the)Tj
1.4514 0 Td
(output)Tj
2.8573 0 Td
(of)Tj
1.0034 0 Td
(Chromopainter)Tj
6.4006 0 Td
(to)Tj
1.0091 0 Td
(assign)Tj
2.6249 0 Td
(individuals)Tj
4.5808 0 Td
(to)Tj
1.0148 0 Td
(populations)Tj
-31.3283 -1.3039 Td
(with)Tj
1.9729 0 Td
(distinct)Tj
3.1634 0 Td
(ancestry)Tj
3.4866 0 Td
(profiles.)Tj
3.3732 0 Td
(We)Tj
1.5987 0 Td
(applied)Tj
3.1068 0 Td
(fineSTRUCTURE)Tj
7.319 0 Td
(to)Tj
1.0148 0 Td
(the)Tj
1.4513 0 Td
(global)Tj
2.5852 0 Td
(painting)Tj
3.5206 0 Td
(to)Tj
1.0148 0 Td
(identify)Tj
-33.6073 -1.2983 Td
(subpopulations)Tj
6.2645 0 Td
(in)Tj
1.0204 0 Td
(the)Tj
1.4514 0 Td
(dataset)Tj
2.9537 0 Td
(\()Tj
0.83 0.64 0.02 0 k
(Fig)Tj
1.7971 0 Td
(1)Tj
0 g
(\).)Tj
1.2416 0 Td
(In)Tj
1.0998 0 Td
(order)Tj
2.3924 0 Td
(to)Tj
1.0092 0 Td
(make)Tj
2.3697 0 Td
(display)Tj
2.9877 0 Td
(and)Tj
1.7121 0 Td
(reporting)Tj
3.9345 0 Td
(of)Tj
1.0034 0 Td
(the)Tj
1.4514 0 Td
(results)Tj
2.7666 0 Td
(trac-)Tj
-35.4555 -1.2983 Td
(table,)Tj
2.3187 0 Td
(we)Tj
1.3152 0 Td
(merged)Tj
3.2145 0 Td
(the)Tj
1.4513 0 Td
(most)Tj
2.1827 0 Td
(similar)Tj
2.9423 0 Td
(populations)Tj
4.8869 0 Td
(until)Tj
2.0807 0 Td
(12)Tj
1.1565 0 Td
(distinct)Tj
3.1634 0 Td
(populations)Tj
4.8869 0 Td
(remained,)Tj
4.2066 0 Td
(5)Tj
0.6917 0 Td
(of)Tj
-34.4974 -1.3039 Td
(which)Tj
2.6191 0 Td
(are)Tj
1.4287 0 Td
(restricted)Tj
3.9288 0 Td
(to)Tj
1.0148 0 Td
(the)Tj
1.4513 0 Td
(New)Tj
2.0466 0 Td
(World.)Tj
3.0274 0 Td
(The)Tj
1.7631 0 Td
(palette)Tj
3.5887 0 Td
(of)Tj
1.0034 0 Td
(each)Tj
2.007 0 Td
(strain,)Tj
2.6815 0 Td
(representing)Tj
5.1704 0 Td
(the)Tj
1.4513 0 Td
(proportion)Tj
-33.1821 -1.2982 Td
(of)Tj
1.0034 0 Td
(chunks)Tj
3.0671 0 Td
(that)Tj
1.7574 0 Td
(come)Tj
2.3641 0 Td
(from)Tj
2.1827 0 Td
(each)Tj
2.0069 0 Td
(population)Tj
4.5297 0 Td
(in)Tj
1.0262 0 Td
(the)Tj
1.4513 0 Td
(donor)Tj
2.6475 0 Td
(panel,)Tj
2.5796 0 Td
(was)Tj
1.6837 0 Td
(determined)Tj
4.7905 0 Td
(for)Tj
1.3663 0 Td
(both)Tj
2.041 0 Td
(the)Tj
1.4513 0 Td
(Old)Tj
-35.9487 -1.2983 Td
(World)Tj
2.8062 0 Td
(\()Tj
0.83 0.64 0.02 0 k
(Fig)Tj
1.7972 0 Td
(2A)Tj
0 g
(\))Tj
1.7008 0 Td
(and)Tj
1.7121 0 Td
(the)Tj
1.4513 0 Td
(Global)Tj
2.8403 0 Td
(\()Tj
0.83 0.64 0.02 0 k
(Fig)Tj
1.7972 0 Td
(2B)Tj
0 g
(\))Tj
1.5987 0 Td
(painting.)Tj
3.736 0 Td
(One)Tj
1.9219 0 Td
(of)Tj
1.0035 0 Td
(the)Tj
1.4513 0 Td
(twelve)Tj
2.7156 0 Td
(populations,)Tj
5.1023 0 Td
(hspMiscAmer-)Tj
-31.6344 -1.3039 Td
(ica,)Tj
1.542 0 Td
(contains)Tj
3.5603 0 Td
(isolates)Tj
3.0727 0 Td
(that)Tj
1.7518 0 Td
(are)Tj
1.4343 0 Td
(not)Tj
1.5534 0 Td
(particularly)Tj
4.7395 0 Td
(closely)Tj
2.8403 0 Td
(related)Tj
2.9027 0 Td
(to)Tj
1.0148 0 Td
(each)Tj
2.0069 0 Td
(other)Tj
2.3187 0 Td
(and)Tj
1.7121 0 Td
(should)Tj
2.88 0 Td
(not)Tj
1.5534 0 Td
(be)Tj
-34.8829 -1.2983 Td
(thought)Tj
3.3278 0 Td
(of)Tj
1.0035 0 Td
(as)Tj
1.0034 0 Td
(a)Tj
0.6463 0 Td
(coherent)Tj
3.6964 0 Td
(population)Tj
4.5297 0 Td
(\()Tj
0.83 0.64 0.02 0 k
(Fig)Tj
1.7972 0 Td
(1)Tj
0 g
(\).)Tj
1.2415 0 Td
(The)Tj
1.7688 0 Td
(fineSTRUCTURE)Tj
7.3134 0 Td
(results)Tj
2.7666 0 Td
(are)Tj
1.4343 0 Td
(congruent)Tj
4.2746 0 Td
(with)Tj
-34.8035 -1.2982 Td
(those)Tj
2.3073 0 Td
(obtained)Tj
3.6851 0 Td
(by)Tj
1.1678 0 Td
(Principal)Tj
3.7984 0 Td
(Component)Tj
5.0003 0 Td
(Analysis,)Tj
3.7474 0 Td
(PCA,)Tj
2.33 0 Td
(which)Tj
2.6192 0 Td
(show)Tj
2.2791 0 Td
(differences)Tj
4.4957 0 Td
(between)Tj
3.4866 0 Td
(the)Tj
-34.9169 -1.2983 Td
(subpopulations)Tj
6.2645 0 Td
(within)Tj
2.7722 0 Td
(the)Tj
1.4514 0 Td
(first)Tj
1.7801 0 Td
(5)Tj
0.686 0 Td
(Principal)Tj
3.8041 0 Td
(Components)Tj
5.3517 0 Td
(\()Tj
0.83 0.64 0.02 0 k
(S1)Tj
1.4967 0 Td
(Fig)Tj
0 g
(\))Tj
1.7915 0 Td
(but)Tj
1.5364 0 Td
(are)Tj
1.4343 0 Td
(easier)Tj
2.4605 0 Td
(to)Tj
1.0148 0 Td
(interpret.)Tj
ET
Q
q
1 j
1 J
0 w
11.9999 0 0 11.9999 200.0125 126.9921 cm
BT
/F0 1 Tf
1 TL
-0.0033 Tc
0 0 Td
(Increased)Tj
4.559 0 Td
(number)Tj
3.5717 0 Td
(of)Tj
1.0488 0 Td
(isolates)Tj
3.5623 0 Td
(reveals)Tj
3.4063 0 Td
(substructures)Tj
6.1607 0 Td
(in)Tj
0.9827 0 Td
(the)Tj
1.5921 0 Td
(Old)Tj
1.7622 0 Td
(World)Tj
-26.6458 -1.1669 Td
(populations)Tj
ET
Q
q
1 j
1 J
0 w
10 0 0 10 200.0125 95.9811 cm
BT
/F9 1 Tf
1 TL
-0.004 Tc
0 0 Td
(Each)Tj
2.1656 0 Td
(of)Tj
1.0035 0 Td
(the)Tj
1.457 0 Td
(7)Tj
0.6859 0 Td
(populations)Tj
4.9436 0 Td
(found)Tj
2.6079 0 Td
(in)Tj
1.0261 0 Td
(the)Tj
1.457 0 Td
(Old)Tj
1.7348 0 Td
(World)Tj
2.829 0 Td
(has)Tj
1.5307 0 Td
(been)Tj
2.1146 0 Td
(reported)Tj
3.6453 0 Td
(previously)Tj
4.3427 0 Td
(with)Tj
1.9899 0 Td
(the)Tj
1.457 0 Td
(excep-)Tj
-34.9906 -1.2982 Td
(tion)Tj
1.8425 0 Td
(that,)Tj
2.0012 0 Td
(with)Tj
1.9956 0 Td
(the)Tj
1.4683 0 Td
(addition)Tj
3.6 0 Td
(of)Tj
1.0148 0 Td
(the)Tj
1.4683 0 Td
(large)Tj
2.16 0 Td
(number)Tj
3.4186 0 Td
(of)Tj
1.0148 0 Td
(isolates)Tj
3.1181 0 Td
(in)Tj
1.0374 0 Td
(this)Tj
1.6725 0 Td
(study,)Tj
2.6135 0 Td
(hpEurope)Tj
4.1839 0 Td
(isolates)Tj
ET
Q
q
1 j
1 J
0 w
576 737.1 m
36 737.1 l
36 737.6 l
576 737.6 l
f*
36 741.2598 133.6819 23.6976 re
W* n
q
133.6252 0 0 23.6409 36 741.3165 cm
q
/I0 Do
Q
Q
Q
q
0 0 612 792 re
W* n
1 j
1 J
0 w
7.9999 0 0 7.9999 383.4708 745.7952 cm
BT
/F7 1 Tf
1 TL
-0.005 Tc
0 0 Td
(Helicobacter)Tj
5.6764 0 Td
(pylori)Tj
/F0 1 Tf
2.5583 0 Td
(evolution)Tj
4.1386 0 Td
(in)Tj
0.9779 0 Td
(post-Columbi)Tj
5.7898 0 Td
(an)Tj
1.3111 0 Td
(America)Tj
ET
Q
q
1 j
1 J
0 w
36 48.0002 m
576 48.0002 l
576 47.5002 l
36 47.5002 l
f*
7.9999 0 0 7.9999 36 36 cm
BT
/F0 1 Tf
1 TL
-0.005 Tc
0 0 Td
(PLOS)Tj
2.8559 0 Td
(Genetics)Tj
4.1102 0 Td
(|)Tj
0.4749 0 Td
(DOI:10.137)Tj
5.0315 0 Td
(1/journal.pg)Tj
5.1237 0 Td
(en.1006546)Tj
6.1866 0 Td
(February)Tj
4.1528 0 Td
(23,)Tj
1.5874 0 Td
(2017)Tj
35.6176 0 Td
(3)Tj
0.7654 0 Td
(/)Tj
ET
endstream
endobj
49 0 obj
<>stream
endstream
endobj
50 0 obj
<>stream
endstream
endobj
51 0 obj
<>stream
endstream
endobj
52 0 obj
<>stream
endstream
endobj
53 0 obj
<>stream
endstream
endobj
54 0 obj
<>stream
endstream
endobj
55 0 obj
<>stream
endstream
endobj
56 0 obj
<>stream
endstream
endobj
57 0 obj
<>stream
BT
66.402 0 Td
(21)Tj
ET
Q
endstream
endobj
58 0 obj
<>/XObject<>>>/CropBox[0 0 612 792]/MediaBox[0 0 612 792]/Parent 11 0 R/Annots 62 0 R/Contents 63 0 R/TrimBox[0 0 612 792]>>
endobj
61 0 obj
<>stream
JFIF C
$, !$4.763.22:ASF:=N>22HbINVX]^]8EfmeZlS[]Y C**Y;2;YYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYY "
} !1AQa"q2#BR$3br
%&'()*456789:CDEFGHIJSTUVWXYZcdefghijstuvwxyz
w !1AQaq"2B #3Rbr
$4%&'()*56789:CDEFGHIJSTUVWXYZcdefghijstuvwxyz ? (
(
+A]xL5f@Q9Z( ( ( o>?فb@ߘqW%]g^-