Characterization and Expression of the Lucina pectinata Oxygen and Sulfide Binding Hemoglobin Genes

PloS One
Ingrid M Montes-RodríguezCarmen L Cadilla

Abstract

The clam Lucina pectinata lives in sulfide-rich muds and houses intracellular symbiotic bacteria that need to be supplied with hydrogen sulfide and oxygen. This clam possesses three hemoglobins: hemoglobin I (HbI), a sulfide-reactive protein, and hemoglobin II (HbII) and III (HbIII), which are oxygen-reactive. We characterized the complete gene sequence and promoter regions for the oxygen reactive hemoglobins and the partial structure and promoters of the HbI gene from Lucina pectinata. We show that HbI has two mRNA variants, where the 5'end had either a sequence of 96 bp (long variant) or 37 bp (short variant). The gene structure of the oxygen reactive Hbs is defined by having 4-exons/3-introns with conservation of intron location at B12.2 and G7.0 and the presence of pre-coding introns, while the partial gene structure of HbI has the same intron conservation but appears to have a 5-exon/ 4-intron structure. A search for putative transcription factor binding sites (TFBSs) was done with the promoters for HbII, HbIII, HbI short and HbI long. The HbII, HbIII and HbI long promoters showed similar predicted TFBSs. We also characterized MITE-like elements in the HbI and HbII gene promoters and intronic regions that are similar to se...Continue Reading

References

Nov 9, 1992·FEBS Letters·L MoensC N Trotman
Dec 1, 1992·Comparative Biochemistry and Physiology. B, Comparative Biochemistry·S N VinogradovB Pohajdak
Aug 1, 1991·Proceedings of the National Academy of Sciences of the United States of America·Y NaitoA F Riggs
Oct 5, 1990·Journal of Molecular Biology·S F AltschulD J Lipman
Sep 15, 1994·Nature·B CharlesworthW Stephan
Dec 1, 1993·Current Opinion in Genetics & Development·J F McDonald
Sep 1, 1997·Nucleic Acids Research·S F AltschulD J Lipman
Jun 5, 1998·The Journal of Biological Chemistry·S DewildeL Moens
Oct 29, 1998·Cellular and Molecular Life Sciences : CMLS·T Suzuki, K Imai
Sep 17, 1999·Bioinformatics·T Tsunoda, T Takagi
Feb 3, 2000·Proceedings of the National Academy of Sciences of the United States of America·Q ZhangS R Wessler
Nov 1, 2000·Nucleic Acids Research·M BursetV V Solovyev
Mar 6, 2002·The Journal of Biological Chemistry·Krzysztof Sobczak, Wlodzimierz J Krzyzosiak
Apr 18, 2002·Proceedings of the National Academy of Sciences of the United States of America·Zhi-Jun DuanQiliang Li
Nov 26, 2002·The Journal of Biological Chemistry·Valerie Blanc, Nicholas O Davidson
Mar 4, 2003·Journal of Molecular Evolution·Patrick M GaffneyWendy K Glenn
Oct 3, 2003·Cellular and Molecular Life Sciences : CMLS·K KawanoT Suzuki
Jan 22, 2004·Bioinformatics·Ryan BrodieChris Upton
Jul 9, 2004·Applied and Environmental Microbiology·Melinda R DuplessisHorst Felbeck
Dec 16, 2004·Journal of Inorganic Biochemistry·Xavier Bailly, Serge Vinogradov
Jan 14, 2005·Nucleic Acids Research·Bin TianCarol S Lutz
Jun 1, 2005·Biological Reviews of the Cambridge Philosophical Society·James A Shapiro, Richard von Sternberg
Jan 25, 2006·Trends in Genetics : TIG·Thomas A Hughes
Feb 10, 2006·Journal of Biological Inorganic Chemistry : JBIC : a Publication of the Society of Biological Inorganic Chemistry·Walleska De Jesús-BonillaJuan López-Garriga
Nov 15, 2006·Proceedings of the National Academy of Sciences of the United States of America·Ken NaitoSusan R Wessler
Feb 28, 2007·Genome Biology·Shobhit GuptaWilliam Stafford Noble
Mar 7, 2007·Nucleic Acids Research·Virginie MoucadelDaniel Gautheret
Oct 19, 1984·Science·R Lewin
Dec 14, 2007·Annual Review of Genetics·Cédric Feschotte, Ellen J Pritham
Mar 11, 2008·Trends in Genetics : TIG·Ramana V DavuluriTim H-M Huang
Jan 10, 2009·Marine Environmental Research·Mélina C Z LaurentNadine Le Bris
Jan 17, 2009·Analytical Biochemistry·Stefan KrebsHelmut Blum
Apr 7, 2009·Applied and Environmental Microbiology·Audrey CaroOlivier Gros
Oct 29, 2009·Biochemistry·Graham D BalkwillMark S Searle
Jan 17, 2012·Molecular Cell·Nilkantha SenSolomon H Snyder
Mar 30, 2012·The Journal of Biological Chemistry·Juan Pablo PalaviciniJoshua J C Rosenthal
Oct 31, 2013·Genome Génome / Conseil National De Recherches Canada·Isam FattashGuojun Yang
Nov 18, 2014·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·Patricia HeynKarla M Neugebauer

❮ Previous
Next ❯

Citations

Mar 29, 2020·Journal of Inorganic Biochemistry·Darya Marchany-RiveraJuan López-Garriga
Apr 2, 2021·Biopolymers·Darya Marchany-RiveraJuan López-Garriga
Jul 5, 2017··Carmen L. CadillaJuan Lopéz-Garriga

❮ Previous
Next ❯

Datasets Mentioned

BETA
EU999997
KU323925
KU524081
KU524082
KU524077
KU524079
AF187049.1
AY243364.1
EU040120.1

Methods Mentioned

BETA
PCR
electrophoresis
size exclusion chromatography
environmental stress

Software Mentioned

LAGAND
Primer Express
CONREAL
BLAST
MEME
AliBaba2
TOMTOM
Primer 3
JDotter
Sequence Manipulation Suite

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.