Association of rare non-coding SNVs in the lung-specific FOXF1
enhancer with a mitigation of the lethal ACDMPV phenotype

J 2019

Association of rare non-coding SNVs in the lung-specific FOXF1 enhancer with a mitigation of the lethal ACDMPV phenotype

SZAFRANSKI, Przemyslaw, Qian LIU, Justyna A. KAROLAK, Xiaofei SONG, Nicole DE LEEUW et. al.

Basic information

Original name

Association of rare non-coding SNVs in the lung-specific FOXF1 enhancer with a mitigation of the lethal ACDMPV phenotype

Authors

SZAFRANSKI, Przemyslaw (840 United States of America, guarantor), Qian LIU (840 United States of America), Justyna A. KAROLAK (840 United States of America), Xiaofei SONG (840 United States of America), Nicole DE LEEUW (528 Netherlands), Brigitte FAAS (528 Netherlands), Romana GERYCHOVÁ (203 Czech Republic, belonging to the institution), Petr JANKŮ (203 Czech Republic, belonging to the institution), Marta JEŽOVÁ (203 Czech Republic, belonging to the institution), Iveta VALÁŠKOVÁ (203 Czech Republic, belonging to the institution), Kathleen A. GIBBS (840 United States of America), Lea F. SURREY (840 United States of America), Virginie POISSON (124 Canada), Denis BERUBE (124 Canada), Luc L. OLIGNY (124 Canada), Jacques L. MICHAUD (124 Canada), Edwina POPEK (840 United States of America) and Pawel STANKIEWICZ (840 United States of America)

Edition

Human Genetics, NEW YORK, SPRINGER, 2019, 0340-6717

Other information

Language

English

Type of outcome

Článek v odborném periodiku

Field of Study

10603 Genetics and heredity

Country of publisher

United States of America

Confidentiality degree

není předmětem státního či obchodního tajemství

References:

URL

Impact factor

Impact factor: 5.743

RIV identification code

RIV/00216224:14110/19:00112517

Organization unit

Faculty of Medicine

DOI

http://dx.doi.org/10.1007/s00439-019-02073-x

UT WoS

000493929500001

Keywords in English

ALVEOLAR-CAPILLARY DYSPLASIA; MICE HETEROZYGOUS NULL; PULMONARY VEINS; GENE FOXF1; MISALIGNMENT; TRANSCRIPTION; VARIANTS; VESSELS; HAPLOINSUFFICIENCY; EXPRESSION

Abstract

V originále

Haploinsufficiency of FOXF1 causes alveolar capillary dysplasia with misalignment of pulmonary veins (ACDMPV), a lethal neonatal lung developmental disorder. We describe two similar heterozygous CNV deletions involving the FOXF1 enhancer and re-analyze FOXF1 missense mutation, all associated with an unexpectedly mitigated disease phenotype. In one case, the deletion of the maternal allele of the FOXF1 enhancer caused pulmonary hypertension and histopathologically diagnosed MPV without the typical ACD features. In the second case, the deletion of the paternal enhancer resulted in ACDMPV rather than the expected neonatal lethality. In both cases, FOXF1 expression in lung tissue was higher than usually seen or expected in patients with similar deletions, suggesting an increased activity of the remaining allele of the enhancer. Sequencing of these alleles revealed two rare SNVs, rs150502618-A and rs79301423-T, mapping to the partially overlapping binding sites for TFAP2s and CTCF in the core region of the enhancer. Moreover, in a family with three histopathologically-diagnosed ACDMPV siblings whose missense FOXF1 mutation was inherited from the healthy non-mosaic carrier mother, we have identified a rare SNV rs28571077-A within 2-kb of the above-mentioned non-coding SNVs in the FOXF1 enhancer in the mother, that was absent in the affected newborns and 13 unrelated ACDMPV patients with CNV deletions of this genomic region. Based on the low population frequencies of these three variants, their absence in ACDMPV patients, the results of reporter assay, RNAi and EMSA experiments, and in silico predictions, we propose that the described SNVs might have acted on FOXF1 enhancer as hypermorphs.

Citovat

SZAFRANSKI, Przemyslaw, Qian LIU, Justyna A. KAROLAK, Xiaofei SONG, Nicole DE LEEUW, Brigitte FAAS, Romana GERYCHOVÁ, Petr JANKŮ, Marta JEŽOVÁ, Iveta VALÁŠKOVÁ, Kathleen A. GIBBS, Lea F. SURREY, Virginie POISSON, Denis BERUBE, Luc L. OLIGNY, Jacques L. MICHAUD, Edwina POPEK and Pawel STANKIEWICZ. Association of rare non-coding SNVs in the lung-specific FOXF1 enhancer with a mitigation of the lethal ACDMPV phenotype. Human Genetics. NEW YORK: SPRINGER, 2019, vol. 138, 11-12, p. 1301-1311. ISSN 0340-6717. Available from: https://dx.doi.org/10.1007/s00439-019-02073-x.

@article{1605616,
   author = {Szafranski, Przemyslaw and Liu, Qian and Karolak, Justyna A. and Song, Xiaofei and de Leeuw, Nicole and Faas, Brigitte and Gerychová, Romana and Janků, Petr and Ježová, Marta and Valášková, Iveta and Gibbs, Kathleen A. and Surrey, Lea F. and Poisson, Virginie and Berube, Denis and Oligny, Luc L. and Michaud, Jacques L. and Popek, Edwina and Stankiewicz, Pawel},
   article_location = {NEW YORK},
   article_number = {11-12},
   doi = {http://dx.doi.org/10.1007/s00439-019-02073-x},
   keywords = {ALVEOLAR-CAPILLARY DYSPLASIA; MICE HETEROZYGOUS NULL; PULMONARY VEINS; GENE FOXF1; MISALIGNMENT; TRANSCRIPTION; VARIANTS; VESSELS; HAPLOINSUFFICIENCY; EXPRESSION},
   language = {eng},
   issn = {0340-6717},
   journal = {Human Genetics},
   title = {Association of rare non-coding SNVs in the lung-specific FOXF1 enhancer with a mitigation of the lethal ACDMPV phenotype},
   url = {http://dx.doi.org/10.1007/s00439-019-02073-x},
   volume = {138},
   year = {2019}
}

TY  - JOUR
ID  - 1605616
AU  - Szafranski, Przemyslaw - Liu, Qian - Karolak, Justyna A. - Song, Xiaofei - de Leeuw, Nicole - Faas, Brigitte - Gerychová, Romana - Janků, Petr - Ježová, Marta - Valášková, Iveta - Gibbs, Kathleen A. - Surrey, Lea F. - Poisson, Virginie - Berube, Denis - Oligny, Luc L. - Michaud, Jacques L. - Popek, Edwina - Stankiewicz, Pawel
PY  - 2019
TI  - Association of rare non-coding SNVs in the lung-specific FOXF1 enhancer with a mitigation of the lethal ACDMPV phenotype
JF  - Human Genetics
VL  - 138
IS  - 11-12
SP  - 1301-1311
EP  - 1301-1311
PB  - SPRINGER
SN  - 03406717
KW  - ALVEOLAR-CAPILLARY DYSPLASIA
KW  - MICE HETEROZYGOUS NULL
KW  - PULMONARY VEINS
KW  - GENE FOXF1
KW  - MISALIGNMENT
KW  - TRANSCRIPTION
KW  - VARIANTS
KW  - VESSELS
KW  - HAPLOINSUFFICIENCY
KW  - EXPRESSION
UR  - http://dx.doi.org/10.1007/s00439-019-02073-x
L2  - http://dx.doi.org/10.1007/s00439-019-02073-x
N2  - Haploinsufficiency of FOXF1 causes alveolar capillary dysplasia with misalignment of pulmonary veins (ACDMPV), a lethal neonatal lung developmental disorder. We describe two similar heterozygous CNV deletions involving the FOXF1 enhancer and re-analyze FOXF1 missense mutation, all associated with an unexpectedly mitigated disease phenotype. In one case, the deletion of the maternal allele of the FOXF1 enhancer caused pulmonary hypertension and histopathologically diagnosed MPV without the typical ACD features. In the second case, the deletion of the paternal enhancer resulted in ACDMPV rather than the expected neonatal lethality. In both cases, FOXF1 expression in lung tissue was higher than usually seen or expected in patients with similar deletions, suggesting an increased activity of the remaining allele of the enhancer. Sequencing of these alleles revealed two rare SNVs, rs150502618-A and rs79301423-T, mapping to the partially overlapping binding sites for TFAP2s and CTCF in the core region of the enhancer. Moreover, in a family with three histopathologically-diagnosed ACDMPV siblings whose missense FOXF1 mutation was inherited from the healthy non-mosaic carrier mother, we have identified a rare SNV rs28571077-A within 2-kb of the above-mentioned non-coding SNVs in the FOXF1 enhancer in the mother, that was absent in the affected newborns and 13 unrelated ACDMPV patients with CNV deletions of this genomic region. Based on the low population frequencies of these three variants, their absence in ACDMPV patients, the results of reporter assay, RNAi and EMSA experiments, and in silico predictions, we propose that the described SNVs might have acted on FOXF1 enhancer as hypermorphs.
ER  -

SZAFRANSKI, Przemyslaw, Qian LIU, Justyna A. KAROLAK, Xiaofei SONG, Nicole DE LEEUW, Brigitte FAAS, Romana GERYCHOVÁ, Petr JANKŮ, Marta JEŽOVÁ, Iveta VALÁŠKOVÁ, Kathleen A. GIBBS, Lea F. SURREY, Virginie POISSON, Denis BERUBE, Luc L. OLIGNY, Jacques L. MICHAUD, Edwina POPEK and Pawel STANKIEWICZ. Association of rare non-coding SNVs in the lung-specific FOXF1 enhancer with a mitigation of the lethal ACDMPV phenotype. \textit{Human Genetics}. NEW YORK: SPRINGER, 2019, vol.~138, 11-12, p.~1301-1311. ISSN~0340-6717. Available from: https://dx.doi.org/10.1007/s00439-019-02073-x.

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