Onset of human preterm and term birth is related to unique inflammatory transcriptome profiles at the maternal fetal interface

Radek Bukowski*, Yoel Sadovsky, Hani Goodarzi, Heping Zhang, Joseph R. Biggio, Michael Varner, Samuel Parry, Feifei Xiao, Sean M. Esplin, William Andrews, George R. Saade, John V. Ilekis, Uma M. Reddy, Donald A. Baldwin, Stephanie Wilson Archer, Rachel L. Copper, Pamela B. Files, Stacy L. Harris, Ian Blair, Rita Leite & 31 others Galveston Margaret L. Zimmerle, Janet L. Brandon, Sonia Jordan, Angela Jones, Kelly Vorwaller, Sharon Quinn, Valerie S. Morby, Kathleen N. Jolley, Julie A. Postma, Kei Hoi Cheung, Donna DelBasso, Xiaobo Guo, Buqu Hu, Hao Huang, Lina Jin, Analisa L. Lin, Charles C. Lu, Laura Ment, Lauren Perley, Laura Jeanne Simone, Dwight J. Rouse, Donna Allard, Ronald Wapner, Michelle Divito, Sabine Bousleiman, Vilmarie Carmona, Rosely Alcon, Katty Saravia, Luiza Kalemi, Alan M. Peaceman, on behalf of the Eunice Kennedy Shriver National Institute of Child Health and Human Development Genomic and Proteomic Network for Preterm Birth Research

*Corresponding author for this work

Research output: Contribution to journalArticle

10 Citations (Scopus)

Abstract

Background. Preterm birth is a main determinant of neonatal mortality and morbidity and a major contributor to the overall mortality and burden of disease. However, research of the preterm birth is hindered by the imprecise definition of the clinical phenotype and complexity of the molecular phenotype due to multiple pregnancy tissue types and molecular processes that may contribute to the preterm birth. Here we comprehensively evaluate the mRNA transcriptome that characterizes preterm and term labor in tissues comprising the pregnancy using precisely phenotyped samples. The four complementary phenotypes together provide comprehensive insight into preterm and term parturition. Methods. Samples of maternal blood, chorion, amnion, placenta, decidua, fetal blood, and myometrium from the uterine fundus and lower segment (n = 183) were obtained during cesarean delivery from women with four complementary phenotypes: delivering preterm with (PL) and without labor (PNL), term with (TL) and without labor (TNL). Enrolled were 35 pregnant women with four precisely and prospectively defined phenotypes: PL (n = 8), PNL (n = 10), TL (n = 7) and TNL (n = 10). Gene expression data were analyzed using shrunken centroid analysis to identify a minimal set of genes that uniquely characterizes each of the four phenotypes. Expression profiles of 73 genes and non-coding RNA sequences uniquely identified each of the four phenotypes. The shrunken centroid analysis and 10 times 10-fold cross-validation was also used to minimize false positive finings and overfitting. Identified were the pathways and molecular processes associated with and the cis-regulatory elements in gene's 50 promoter or 30-UTR regions of the set of genes which expression uniquely characterized the four phenotypes. Results. The largest differences in gene expression among the four groups occurred at maternal fetal interface in decidua, chorion and amnion. The gene expression profiles showed suppression of chemokines expression in TNL, withdrawal of this suppression in TL, activation of multiple pathways of inflammation in PL, and an immune rejection profile in PNL. The genes constituting expression signatures showed over-representation of three putative regulatory elements in their 50and 30 UTR regions. Conclusions. The results suggest that pregnancy is maintained by downregulation of chemokines at the maternal-fetal interface. Withdrawal of this downregulation results in the term birth and its overriding by the activation of multiple pathways of the immune system in the preterm birth. Complications of the pregnancy associated with impairment of placental function, which necessitated premature delivery of the fetus in the absence of labor, show gene expression patterns associated with immune rejection.

Original languageEnglish (US)
Article number3685
JournalPeerJ
Volume2017
Issue number9
DOIs
StatePublished - Jan 1 2017

Fingerprint

Term Birth
Premature Birth
Transcriptome
Gene expression
transcriptome
Mothers
Phenotype
premature birth
phenotype
Personnel
gene expression
Untranslated Regions
labor
Genes
amnion
Chemokines
Gene Expression
Chorion
Decidua
Amnion

Keywords

  • Gene expression
  • Labor
  • Pregnancy
  • Pretrem labor
  • Transcriptomics

ASJC Scopus subject areas

  • Neuroscience(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)

Cite this

Bukowski, R., Sadovsky, Y., Goodarzi, H., Zhang, H., Biggio, J. R., Varner, M., ... on behalf of the Eunice Kennedy Shriver National Institute of Child Health and Human Development Genomic and Proteomic Network for Preterm Birth Research (2017). Onset of human preterm and term birth is related to unique inflammatory transcriptome profiles at the maternal fetal interface. PeerJ, 2017(9), [3685]. https://doi.org/10.7717/peerj.3685
Bukowski, Radek ; Sadovsky, Yoel ; Goodarzi, Hani ; Zhang, Heping ; Biggio, Joseph R. ; Varner, Michael ; Parry, Samuel ; Xiao, Feifei ; Esplin, Sean M. ; Andrews, William ; Saade, George R. ; Ilekis, John V. ; Reddy, Uma M. ; Baldwin, Donald A. ; Archer, Stephanie Wilson ; Copper, Rachel L. ; Files, Pamela B. ; Harris, Stacy L. ; Blair, Ian ; Leite, Rita ; Zimmerle, Galveston Margaret L. ; Brandon, Janet L. ; Jordan, Sonia ; Jones, Angela ; Vorwaller, Kelly ; Quinn, Sharon ; Morby, Valerie S. ; Jolley, Kathleen N. ; Postma, Julie A. ; Cheung, Kei Hoi ; DelBasso, Donna ; Guo, Xiaobo ; Hu, Buqu ; Huang, Hao ; Jin, Lina ; Lin, Analisa L. ; Lu, Charles C. ; Ment, Laura ; Perley, Lauren ; Simone, Laura Jeanne ; Rouse, Dwight J. ; Allard, Donna ; Wapner, Ronald ; Divito, Michelle ; Bousleiman, Sabine ; Carmona, Vilmarie ; Alcon, Rosely ; Saravia, Katty ; Kalemi, Luiza ; Peaceman, Alan M. ; on behalf of the Eunice Kennedy Shriver National Institute of Child Health and Human Development Genomic and Proteomic Network for Preterm Birth Research. / Onset of human preterm and term birth is related to unique inflammatory transcriptome profiles at the maternal fetal interface. In: PeerJ. 2017 ; Vol. 2017, No. 9.
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title = "Onset of human preterm and term birth is related to unique inflammatory transcriptome profiles at the maternal fetal interface",
abstract = "Background. Preterm birth is a main determinant of neonatal mortality and morbidity and a major contributor to the overall mortality and burden of disease. However, research of the preterm birth is hindered by the imprecise definition of the clinical phenotype and complexity of the molecular phenotype due to multiple pregnancy tissue types and molecular processes that may contribute to the preterm birth. Here we comprehensively evaluate the mRNA transcriptome that characterizes preterm and term labor in tissues comprising the pregnancy using precisely phenotyped samples. The four complementary phenotypes together provide comprehensive insight into preterm and term parturition. Methods. Samples of maternal blood, chorion, amnion, placenta, decidua, fetal blood, and myometrium from the uterine fundus and lower segment (n = 183) were obtained during cesarean delivery from women with four complementary phenotypes: delivering preterm with (PL) and without labor (PNL), term with (TL) and without labor (TNL). Enrolled were 35 pregnant women with four precisely and prospectively defined phenotypes: PL (n = 8), PNL (n = 10), TL (n = 7) and TNL (n = 10). Gene expression data were analyzed using shrunken centroid analysis to identify a minimal set of genes that uniquely characterizes each of the four phenotypes. Expression profiles of 73 genes and non-coding RNA sequences uniquely identified each of the four phenotypes. The shrunken centroid analysis and 10 times 10-fold cross-validation was also used to minimize false positive finings and overfitting. Identified were the pathways and molecular processes associated with and the cis-regulatory elements in gene's 50 promoter or 30-UTR regions of the set of genes which expression uniquely characterized the four phenotypes. Results. The largest differences in gene expression among the four groups occurred at maternal fetal interface in decidua, chorion and amnion. The gene expression profiles showed suppression of chemokines expression in TNL, withdrawal of this suppression in TL, activation of multiple pathways of inflammation in PL, and an immune rejection profile in PNL. The genes constituting expression signatures showed over-representation of three putative regulatory elements in their 50and 30 UTR regions. Conclusions. The results suggest that pregnancy is maintained by downregulation of chemokines at the maternal-fetal interface. Withdrawal of this downregulation results in the term birth and its overriding by the activation of multiple pathways of the immune system in the preterm birth. Complications of the pregnancy associated with impairment of placental function, which necessitated premature delivery of the fetus in the absence of labor, show gene expression patterns associated with immune rejection.",
keywords = "Gene expression, Labor, Pregnancy, Pretrem labor, Transcriptomics",
author = "Radek Bukowski and Yoel Sadovsky and Hani Goodarzi and Heping Zhang and Biggio, {Joseph R.} and Michael Varner and Samuel Parry and Feifei Xiao and Esplin, {Sean M.} and William Andrews and Saade, {George R.} and Ilekis, {John V.} and Reddy, {Uma M.} and Baldwin, {Donald A.} and Archer, {Stephanie Wilson} and Copper, {Rachel L.} and Files, {Pamela B.} and Harris, {Stacy L.} and Ian Blair and Rita Leite and Zimmerle, {Galveston Margaret L.} and Brandon, {Janet L.} and Sonia Jordan and Angela Jones and Kelly Vorwaller and Sharon Quinn and Morby, {Valerie S.} and Jolley, {Kathleen N.} and Postma, {Julie A.} and Cheung, {Kei Hoi} and Donna DelBasso and Xiaobo Guo and Buqu Hu and Hao Huang and Lina Jin and Lin, {Analisa L.} and Lu, {Charles C.} and Laura Ment and Lauren Perley and Simone, {Laura Jeanne} and Rouse, {Dwight J.} and Donna Allard and Ronald Wapner and Michelle Divito and Sabine Bousleiman and Vilmarie Carmona and Rosely Alcon and Katty Saravia and Luiza Kalemi and Peaceman, {Alan M.} and {on behalf of the Eunice Kennedy Shriver National Institute of Child Health and Human Development Genomic and Proteomic Network for Preterm Birth Research}",
year = "2017",
month = "1",
day = "1",
doi = "10.7717/peerj.3685",
language = "English (US)",
volume = "2017",
journal = "PeerJ",
issn = "2167-8359",
publisher = "PeerJ",
number = "9",

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Bukowski, R, Sadovsky, Y, Goodarzi, H, Zhang, H, Biggio, JR, Varner, M, Parry, S, Xiao, F, Esplin, SM, Andrews, W, Saade, GR, Ilekis, JV, Reddy, UM, Baldwin, DA, Archer, SW, Copper, RL, Files, PB, Harris, SL, Blair, I, Leite, R, Zimmerle, GML, Brandon, JL, Jordan, S, Jones, A, Vorwaller, K, Quinn, S, Morby, VS, Jolley, KN, Postma, JA, Cheung, KH, DelBasso, D, Guo, X, Hu, B, Huang, H, Jin, L, Lin, AL, Lu, CC, Ment, L, Perley, L, Simone, LJ, Rouse, DJ, Allard, D, Wapner, R, Divito, M, Bousleiman, S, Carmona, V, Alcon, R, Saravia, K, Kalemi, L, Peaceman, AM & on behalf of the Eunice Kennedy Shriver National Institute of Child Health and Human Development Genomic and Proteomic Network for Preterm Birth Research 2017, 'Onset of human preterm and term birth is related to unique inflammatory transcriptome profiles at the maternal fetal interface', PeerJ, vol. 2017, no. 9, 3685. https://doi.org/10.7717/peerj.3685

Onset of human preterm and term birth is related to unique inflammatory transcriptome profiles at the maternal fetal interface. / Bukowski, Radek; Sadovsky, Yoel; Goodarzi, Hani; Zhang, Heping; Biggio, Joseph R.; Varner, Michael; Parry, Samuel; Xiao, Feifei; Esplin, Sean M.; Andrews, William; Saade, George R.; Ilekis, John V.; Reddy, Uma M.; Baldwin, Donald A.; Archer, Stephanie Wilson; Copper, Rachel L.; Files, Pamela B.; Harris, Stacy L.; Blair, Ian; Leite, Rita; Zimmerle, Galveston Margaret L.; Brandon, Janet L.; Jordan, Sonia; Jones, Angela; Vorwaller, Kelly; Quinn, Sharon; Morby, Valerie S.; Jolley, Kathleen N.; Postma, Julie A.; Cheung, Kei Hoi; DelBasso, Donna; Guo, Xiaobo; Hu, Buqu; Huang, Hao; Jin, Lina; Lin, Analisa L.; Lu, Charles C.; Ment, Laura; Perley, Lauren; Simone, Laura Jeanne; Rouse, Dwight J.; Allard, Donna; Wapner, Ronald; Divito, Michelle; Bousleiman, Sabine; Carmona, Vilmarie; Alcon, Rosely; Saravia, Katty; Kalemi, Luiza; Peaceman, Alan M.; on behalf of the Eunice Kennedy Shriver National Institute of Child Health and Human Development Genomic and Proteomic Network for Preterm Birth Research.

In: PeerJ, Vol. 2017, No. 9, 3685, 01.01.2017.

Research output: Contribution to journalArticle

TY - JOUR

T1 - Onset of human preterm and term birth is related to unique inflammatory transcriptome profiles at the maternal fetal interface

AU - Bukowski, Radek

AU - Sadovsky, Yoel

AU - Goodarzi, Hani

AU - Zhang, Heping

AU - Biggio, Joseph R.

AU - Varner, Michael

AU - Parry, Samuel

AU - Xiao, Feifei

AU - Esplin, Sean M.

AU - Andrews, William

AU - Saade, George R.

AU - Ilekis, John V.

AU - Reddy, Uma M.

AU - Baldwin, Donald A.

AU - Archer, Stephanie Wilson

AU - Copper, Rachel L.

AU - Files, Pamela B.

AU - Harris, Stacy L.

AU - Blair, Ian

AU - Leite, Rita

AU - Zimmerle, Galveston Margaret L.

AU - Brandon, Janet L.

AU - Jordan, Sonia

AU - Jones, Angela

AU - Vorwaller, Kelly

AU - Quinn, Sharon

AU - Morby, Valerie S.

AU - Jolley, Kathleen N.

AU - Postma, Julie A.

AU - Cheung, Kei Hoi

AU - DelBasso, Donna

AU - Guo, Xiaobo

AU - Hu, Buqu

AU - Huang, Hao

AU - Jin, Lina

AU - Lin, Analisa L.

AU - Lu, Charles C.

AU - Ment, Laura

AU - Perley, Lauren

AU - Simone, Laura Jeanne

AU - Rouse, Dwight J.

AU - Allard, Donna

AU - Wapner, Ronald

AU - Divito, Michelle

AU - Bousleiman, Sabine

AU - Carmona, Vilmarie

AU - Alcon, Rosely

AU - Saravia, Katty

AU - Kalemi, Luiza

AU - Peaceman, Alan M.

AU - on behalf of the Eunice Kennedy Shriver National Institute of Child Health and Human Development Genomic and Proteomic Network for Preterm Birth Research

PY - 2017/1/1

Y1 - 2017/1/1

N2 - Background. Preterm birth is a main determinant of neonatal mortality and morbidity and a major contributor to the overall mortality and burden of disease. However, research of the preterm birth is hindered by the imprecise definition of the clinical phenotype and complexity of the molecular phenotype due to multiple pregnancy tissue types and molecular processes that may contribute to the preterm birth. Here we comprehensively evaluate the mRNA transcriptome that characterizes preterm and term labor in tissues comprising the pregnancy using precisely phenotyped samples. The four complementary phenotypes together provide comprehensive insight into preterm and term parturition. Methods. Samples of maternal blood, chorion, amnion, placenta, decidua, fetal blood, and myometrium from the uterine fundus and lower segment (n = 183) were obtained during cesarean delivery from women with four complementary phenotypes: delivering preterm with (PL) and without labor (PNL), term with (TL) and without labor (TNL). Enrolled were 35 pregnant women with four precisely and prospectively defined phenotypes: PL (n = 8), PNL (n = 10), TL (n = 7) and TNL (n = 10). Gene expression data were analyzed using shrunken centroid analysis to identify a minimal set of genes that uniquely characterizes each of the four phenotypes. Expression profiles of 73 genes and non-coding RNA sequences uniquely identified each of the four phenotypes. The shrunken centroid analysis and 10 times 10-fold cross-validation was also used to minimize false positive finings and overfitting. Identified were the pathways and molecular processes associated with and the cis-regulatory elements in gene's 50 promoter or 30-UTR regions of the set of genes which expression uniquely characterized the four phenotypes. Results. The largest differences in gene expression among the four groups occurred at maternal fetal interface in decidua, chorion and amnion. The gene expression profiles showed suppression of chemokines expression in TNL, withdrawal of this suppression in TL, activation of multiple pathways of inflammation in PL, and an immune rejection profile in PNL. The genes constituting expression signatures showed over-representation of three putative regulatory elements in their 50and 30 UTR regions. Conclusions. The results suggest that pregnancy is maintained by downregulation of chemokines at the maternal-fetal interface. Withdrawal of this downregulation results in the term birth and its overriding by the activation of multiple pathways of the immune system in the preterm birth. Complications of the pregnancy associated with impairment of placental function, which necessitated premature delivery of the fetus in the absence of labor, show gene expression patterns associated with immune rejection.

AB - Background. Preterm birth is a main determinant of neonatal mortality and morbidity and a major contributor to the overall mortality and burden of disease. However, research of the preterm birth is hindered by the imprecise definition of the clinical phenotype and complexity of the molecular phenotype due to multiple pregnancy tissue types and molecular processes that may contribute to the preterm birth. Here we comprehensively evaluate the mRNA transcriptome that characterizes preterm and term labor in tissues comprising the pregnancy using precisely phenotyped samples. The four complementary phenotypes together provide comprehensive insight into preterm and term parturition. Methods. Samples of maternal blood, chorion, amnion, placenta, decidua, fetal blood, and myometrium from the uterine fundus and lower segment (n = 183) were obtained during cesarean delivery from women with four complementary phenotypes: delivering preterm with (PL) and without labor (PNL), term with (TL) and without labor (TNL). Enrolled were 35 pregnant women with four precisely and prospectively defined phenotypes: PL (n = 8), PNL (n = 10), TL (n = 7) and TNL (n = 10). Gene expression data were analyzed using shrunken centroid analysis to identify a minimal set of genes that uniquely characterizes each of the four phenotypes. Expression profiles of 73 genes and non-coding RNA sequences uniquely identified each of the four phenotypes. The shrunken centroid analysis and 10 times 10-fold cross-validation was also used to minimize false positive finings and overfitting. Identified were the pathways and molecular processes associated with and the cis-regulatory elements in gene's 50 promoter or 30-UTR regions of the set of genes which expression uniquely characterized the four phenotypes. Results. The largest differences in gene expression among the four groups occurred at maternal fetal interface in decidua, chorion and amnion. The gene expression profiles showed suppression of chemokines expression in TNL, withdrawal of this suppression in TL, activation of multiple pathways of inflammation in PL, and an immune rejection profile in PNL. The genes constituting expression signatures showed over-representation of three putative regulatory elements in their 50and 30 UTR regions. Conclusions. The results suggest that pregnancy is maintained by downregulation of chemokines at the maternal-fetal interface. Withdrawal of this downregulation results in the term birth and its overriding by the activation of multiple pathways of the immune system in the preterm birth. Complications of the pregnancy associated with impairment of placental function, which necessitated premature delivery of the fetus in the absence of labor, show gene expression patterns associated with immune rejection.

KW - Gene expression

KW - Labor

KW - Pregnancy

KW - Pretrem labor

KW - Transcriptomics

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