An Evolutionary Genomic Approach to Identify Genes Involved in Human Birth Timing
Coordination of fetal maturation with birth timing is essential for mammalian reproduction. In humans, preterm birth is a disorder of profound global health significance. The signals initiating parturition in humans have remained elusive, due to divergence in physiological mechanisms between humans and model organisms typically studied. Because of relatively large human head size and narrow birth canal cross-sectional area compared to other primates, we hypothesized that genes involved in parturition would display accelerated evolution along the human and/or higher primate phylogenetic lineages to decrease the length of gestation and promote delivery of a smaller fetus that transits the birth canal more readily. Further, we tested whether current variation in such accelerated genes contributes to preterm birth risk. Evidence from allometric scaling of gestational age suggests human gestation has been shortened relative to other primates. Consistent with our hypothesis, many genes involved in reproduction show human acceleration in their coding or adjacent noncoding regions. We screened >8,400 SNPs in 150 human accelerated genes in 165 Finnish preterm and 163 control mothers for association with preterm birth. In this cohort, the most significant association was in FSHR, and 8 of the 10 most significant SNPs were in this gene. Further evidence for association of a linkage disequilibrium block of SNPs in FSHR, rs11686474, rs11680730, rs12473870, and rs1247381 was found in African Americans. By considering human acceleration, we identified a novel gene that may be associated with preterm birth, FSHR. We anticipate other human accelerated genes will similarly be associated with preterm birth risk and elucidate essential pathways for human parturition.
Vyšlo v časopise:
An Evolutionary Genomic Approach to Identify Genes Involved in Human Birth Timing. PLoS Genet 7(4): e32767. doi:10.1371/journal.pgen.1001365
Kategorie:
Research Article
prolekare.web.journal.doi_sk:
https://doi.org/10.1371/journal.pgen.1001365
Souhrn
Coordination of fetal maturation with birth timing is essential for mammalian reproduction. In humans, preterm birth is a disorder of profound global health significance. The signals initiating parturition in humans have remained elusive, due to divergence in physiological mechanisms between humans and model organisms typically studied. Because of relatively large human head size and narrow birth canal cross-sectional area compared to other primates, we hypothesized that genes involved in parturition would display accelerated evolution along the human and/or higher primate phylogenetic lineages to decrease the length of gestation and promote delivery of a smaller fetus that transits the birth canal more readily. Further, we tested whether current variation in such accelerated genes contributes to preterm birth risk. Evidence from allometric scaling of gestational age suggests human gestation has been shortened relative to other primates. Consistent with our hypothesis, many genes involved in reproduction show human acceleration in their coding or adjacent noncoding regions. We screened >8,400 SNPs in 150 human accelerated genes in 165 Finnish preterm and 163 control mothers for association with preterm birth. In this cohort, the most significant association was in FSHR, and 8 of the 10 most significant SNPs were in this gene. Further evidence for association of a linkage disequilibrium block of SNPs in FSHR, rs11686474, rs11680730, rs12473870, and rs1247381 was found in African Americans. By considering human acceleration, we identified a novel gene that may be associated with preterm birth, FSHR. We anticipate other human accelerated genes will similarly be associated with preterm birth risk and elucidate essential pathways for human parturition.
Zdroje
1. EsplinMS
2006 Preterm birth: a review of genetic factors and future directions for genetic study. Obstet Gynecol Surv 61 800 806
2. GreenNS
DamusK
SimpsonJL
IamsJ
ReeceEA
2005 Research agenda for preterm birth: recommendations from the March of Dimes. Am J Obstet Gynecol 193 626 635
3. BootheRG
DobsonV
TellerDY
1985 Postnatal development of vision in human and nonhuman primates. Annu Rev Neurosci 8 495 545
4. SmithBH
1989 Dental Development as a Measure of Life-History in Primates. Evolution 43 683 688
5. SmithR
2007 Parturition. N Engl J Med 356 271 283
6. RosenbergK
TrevathanW
2002 Birth, obstetrics and human evolution. BJOG 109 1199 1206
7. WeaverTD
HublinJJ
2009 Neandertal birth canal shape and the evolution of human childbirth. Proc Natl Acad Sci U S A 106 8151 8156
8. Chimpanzee Sequencing and Analysis Consortium 2005 Initial sequence of the chimpanzee genome and comparison with the human genome. Nature 437 69 87
9. ClarkAG
GlanowskiS
NielsenR
ThomasPD
KejariwalA
2003 Inferring nonneutral evolution from human-chimp-mouse orthologous gene trios. Science 302 1960 1963
10. BustamanteCD
Fledel-AlonA
WilliamsonS
NielsenR
HubiszMT
2005 Natural selection on protein-coding genes in the human genome. Nature 437 1153 1157
11. PollardKS
SalamaSR
LambertN
LambotMA
CoppensS
2006 An RNA gene expressed during cortical development evolved rapidly in humans. Nature 443 167 172
12. ChaudhariBP
PlunkettJ
RatajczakCK
ShenTT
DeFrancoEA
2008 The genetics of birth timing: insights into a fundamental component of human development. Clin Genet 74 493 501
13. PlunkettJ
BoreckiI
MorganT
StamilioD
MugliaLJ
2008 Population-based estimate of sibling risk for preterm birth, preterm premature rupture of membranes, placental abruption and pre-eclampsia. BMC Genet 9 44
14. PlunkettJ
FeitosaMF
TrusgnichM
WanglerMF
PalomarL
2009 Mother's genome or maternally-inherited genes acting in the fetus influence gestational age in familial preterm birth. Hum Hered 68 209 219
15. SacherGA
StaffeldtEF
1974 Relation of gestation time to brain weight for placental mammals: implications for the theory of vertebrate growth. The American Naturalist 108 593 615
16. WilcoxAJ
SkaervenR
LieRT
2008 Familial patterns of preterm delivery: maternal and fetal contributions. Am J Epidemiol 167 474 479
17. EhnNL
CooperME
OrrK
ShiM
JohnsonMK
2007 Evaluation of fetal and maternal genetic variation in the progesterone receptor gene for contributions to preterm birth. Pediatr Res 62 630 635
18. WangH
ParryS
MaconesG
SammelMD
FerrandPE
2004 Functionally significant SNP MMP8 promoter haplotypes and preterm premature rupture of membranes (PPROM). Hum Mol Genet 13 2659 2669
19. StoreyJD
TibshiraniR
2003 Statistical significance for genomewide studies. Proc Natl Acad Sci U S A 100 9440 9445
20. PrabhakarS
NoonanJP
PaaboS
RubinEM
2006 Accelerated evolution of conserved noncoding sequences in humans. Science 314 786
21. WheelerDL
BarrettT
BensonDA
BryantSH
CaneseK
2007 Database resources of the National Center for Biotechnology Information. Nucleic Acids Res 35 D5 12
22. KistkaZA
DeFrancoEA
LigthartL
WillemsenG
PlunkettJ
2008 Heritability of parturition timing: an extended twin design analysis. Am J Obstet Gynecol 199 43 e41 45
23. VoightBF
KudaravalliS
WenX
PritchardJK
2006 A map of recent positive selection in the human genome. PLoS Biol 4 e72 doi:10.1371/journal.pbio.0040072
24. BirdCP
StrangerBE
LiuM
ThomasDJ
IngleCE
2007 Fast-evolving noncoding sequences in the human genome. Genome Biol 8 R118
25. LussianaC
GuaniB
MariC
RestagnoG
MassobrioM
2008 Mutations and polymorphisms of the FSH receptor (FSHR) gene: clinical implications in female fecundity and molecular biology of FSHR protein and gene. Obstet Gynecol Surv 63 785 795
26. MeduriG
BachelotA
CoccaMP
VasseurC
RodienP
2008 Molecular pathology of the FSH receptor: new insights into FSH physiology. Mol Cell Endocrinol 282 130 142
27. LudwigM
2009 Are adverse outcomes associated with assisted reproduction related to the technology or couples' subfertility? Nat Clin Pract Urol 6 8 9
28. RomundstadLB
RomundstadPR
SundeA
von DuringV
SkjaervenR
2008 Effects of technology or maternal factors on perinatal outcome after assisted fertilisation: a population-based cohort study. Lancet 372 737 743
29. HascalikS
CelikO
TaglukME
YildirimA
AydinNE
2009 Effects of highly purified urinary FSH and human menopausal FSH on Uterine Myoelectrical Dynamics. Mol Hum Reprod
30. MizrachiD
ShemeshM
1999 Follicle-stimulating hormone receptor and its messenger ribonucleic acid are present in the bovine cervix and can regulate cervical prostanoid synthesis. Biol Reprod 61 776 784
31. ShemeshM
MizrachiD
GurevichM
StramY
ShoreLS
2001 Functional importance of bovine myometrial and vascular LH receptors and cervical FSH receptors. Semin Reprod Med 19 87 96
32. FrazerKA
BallingerDG
CoxDR
HindsDA
StuveLL
2007 A second generation human haplotype map of over 3.1 million SNPs. Nature 449 851 861
33. LiY
GantaS
ChengC
CraigR
GantaRR
2007 FSH stimulates ovarian cancer cell growth by action on growth factor variant receptor. Mol Cell Endocrinol 267 26 37
34. PadmanabhanV
SonsteinJ
OltonPL
NippoldtT
MenonKM
1989 Serum bioactive follicle-stimulating hormone-like activity increases during pregnancy. J Clin Endocrinol Metab 69 968 977
35. SimoniM
GromollJ
NieschlagE
1997 The follicle-stimulating hormone receptor: biochemistry, molecular biology, physiology, and pathophysiology. Endocr Rev 18 739 773
36. DanilovichN
RoyI
SairamMR
2002 Emergence of uterine pathology during accelerated biological aging in FSH receptor-haploinsufficient mice. Endocrinology 143 3618 3627
37. FaustinoNA
CooperTA
2003 Pre-mRNA splicing and human disease. Genes Dev 17 419 437
38. PaganiF
StuaniC
TzetisM
KanavakisE
EfthymiadouA
2003 New type of disease causing mutations: the example of the composite exonic regulatory elements of splicing in CFTR exon 12. Hum Mol Genet 12 1111 1120
39. Committee on Understanding Premature Birth and Assuring Healthy Outcomes 2006 Preterm Birth: Causes, Consequences, and Prevention;
BehrmanRE
ButlerAS
Washington D.C. The National Academies Press
40. R Development Core Team 2009 R: A language and environment for statistical computing: R Foundation for Stastical Computing
41. PurvisA
1995 A composite estimate of primate phylogeny. Philos Trans R Soc Lond B Biol Sci 348 405 421
42. MaddisonW
MaddisonD
2009 Mesquite: a modular system for evolutionary analysis: http://mesquiteproject.org. Accessed September 2010.
43. HubbardTJ
AkenBL
BealK
BallesterB
CaccamoM
2007 Ensembl 2007. Nucleic Acids Res 35 D610 617
44. KuhnRM
KarolchikD
ZweigAS
TrumbowerH
ThomasDJ
2007 The UCSC genome browser database: update 2007. Nucleic Acids Res 35 D668 673
45. BlanchetteM
KentWJ
RiemerC
ElnitskiL
SmitAF
2004 Aligning multiple genomic sequences with the threaded blockset aligner. Genome Res 14 708 715
46. PondSL
FrostSD
MuseSV
2005 HyPhy: hypothesis testing using phylogenies. Bioinformatics 21 676 679
47. MuseSV
GautBS
1994 A likelihood approach for comparing synonymous and nonsynonymous nucleotide substitution rates, with application to the chloroplast genome. Mol Biol Evol 11 715 724
48. NielsenR
BustamanteC
ClarkAG
GlanowskiS
SacktonTB
2005 A scan for positively selected genes in the genomes of humans and chimpanzees. PLoS Biol 3 e170 doi:10.1371/journal.pbio.0030170
49. ArbizaL
DopazoJ
DopazoH
2006 Positive selection, relaxation, and acceleration in the evolution of the human and chimp genome. PLoS Comput Biol 2 e38 doi:10.1371/journal.pcbi.0020038
50. BaileyJA
GuZ
ClarkRA
ReinertK
SamonteRV
2002 Recent segmental duplications in the human genome. Science 297 1003 1007
51. HaflerDA
CompstonA
SawcerS
LanderES
DalyMJ
2007 Risk alleles for multiple sclerosis identified by a genomewide study. N Engl J Med 357 851 862
52. PurcellS
NealeB
Todd-BrownK
ThomasL
FerreiraMA
2007 PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet 81 559 575
53. GaoX
BeckerLC
BeckerDM
StarmerJD
ProvinceMA
2009 Avoiding the high Bonferroni penalty in genome-wide association studies. Genet Epidemiol
54. PritchardJK
StephensM
DonnellyP
2000 Inference of population structure using multilocus genotype data. Genetics 155 945 959
Štítky
Genetika Reprodukčná medicínaČlánok vyšiel v časopise
PLOS Genetics
2011 Číslo 4
- Je „freeze-all“ pro všechny? Odborníci na fertilitu diskutovali na virtuálním summitu
- Gynekologové a odborníci na reprodukční medicínu se sejdou na prvním virtuálním summitu
Najčítanejšie v tomto čísle
- PTG Depletion Removes Lafora Bodies and Rescues the Fatal Epilepsy of Lafora Disease
- Survival Motor Neuron Protein Regulates Stem Cell Division, Proliferation, and Differentiation in
- An Evolutionary Genomic Approach to Identify Genes Involved in Human Birth Timing
- Loss-of-Function Mutations in Cause Metachondromatosis, but Not Ollier Disease or Maffucci Syndrome