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Understanding Biomineralization in Coccolithophores by Comparative Genomic, Transcriptomic and Epigenetic Analyses

Award Number: SC3GM122659
ORGANIZATION: NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES
OPDIV: NIH
AWARD CLASS: DISCRETIONARY
AWARD ACTIVITY TYPE: SCIENTIFIC/HEALTH RESEARCH (INCLUDES SURVEYS)

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Project Summary Coccolithophores are marine phytoplanktons that produce elegantly sculptured calcium carbonate cell coverings known as coccoliths. While coccolith formation is of great interest to areas of material science and medicine, information relating to the genetic and biochemical underpinnings of the biomineralization process in coccolithophores is still lacking. Knowledge of the molecular mechanisms regulating genes and gene products involved in the biomineralization process of coccolithophores may shed light on that of higher organisms, and help to develop strategies to promote healthy mineralization and prevent problems associated with pathological conditions such as rickets, kidney stones, osteoporosis, and ectopic calcification of vascular tissues. Here we propose to improve our understanding of genes and proteins involved in coccolithophorean biomineralization by performing integrated comparative analyses of genomic, transcriptomic and epigenetic data generated from next generation sequencing (NGS). The system for this study consists of three closely related species of Isochrysidales clade of haptophytes: calcifying Emiliania huxleyi (E. huxleyi) and Gephyrocapsa oceanica (G. oceanica), and non-calcifying Isochrysis galbana (I. galbana), as well as E. huxleyi isogeneic strains of M217 (calcifying) and CCMP1516 (non-calcifying). The following specific aims are proposed: Aim 1: Assemble high-quality genomes of G. oceanica and I. galbana by using NGS, and identify key gene and protein groups essential to coccolithophorean biomineralization through integrated study of comparative genomics and transcriptomics. Aim 2: Uncover epigenetic modifications critical to the expression of biomineralization genes. A large amount of NGS data will be generated and computationally analyzed for this study, which help to uncover the genotypic similarity and differences as well as regulatory mechanisms underlying the phenotypic diversities of coccolith formations. The project described here will PI’s current research in bioinformatics, continue to build necessary computational infrastructure and involve more graduate and undergraduate students into bioinformatics research at CSUSM, towards PI’s long-term goal of developing a successful interdisciplinary research/educational program of bioinformatics at CSUSM.


Issue Date FY	Funding FY	Legal Entity Name	Legal Entity Address	Legal Entity City	Legal Entity State	Legal Entity Zip Code	Legal Entity COUNTY	Legal Entity COUNTRY	Assistance Listing	Award Code	Budget Year	Action Date	Action Type	Action Amount

Issue Date FY: 2023 ( Subtotal = -$136,632 )
2023	2020	CALIFORNIA STATE UNIVERSITY SAN MARCOS CORP	333 S TWIN OAKS VALLEY RD	SAN MARCOS	CA	92096	SAN DIEGO	USA	Biomedical Research and Research Training	001	4	1/10/2023	NON-COMPETING CONTINUATION	-$104,400
2023	2019	CALIFORNIA STATE UNIVERSITY SAN MARCOS CORP	333 S TWIN OAKS VALLEY RD	SAN MARCOS	CA	92096	SAN DIEGO	USA	Biomedical Research and Research Training	000	3	1/10/2023	NON-COMPETING CONTINUATION	-$32,232
														Subtotal = -$136,632

Issue Date FY: 2020 ( Subtotal = $104,400 )
2020	2020	CALIFORNIA STATE UNIVERSITY SAN MARCOS CORPORATION	333 S TWIN OAKS VALLEY RD	SAN MARCOS	CA	92096	SAN DIEGO	USA	Biomedical Research and Research Training	000	4	5/21/2020	NON-COMPETING CONTINUATION	$104,400
														Subtotal = $104,400

Issue Date FY: 2019 ( Subtotal = $111,750 )
2019	2019	CALIFORNIA STATE UNIVERSITY SAN MARCOS CORPORATION	333 S TWIN OAKS VALLEY RD	SAN MARCOS	CA	92096	SAN DIEGO	USA	Biomedical Research and Research Training	000	3	7/11/2019	NON-COMPETING CONTINUATION	$111,750
														Subtotal = $111,750

Issue Date FY: 2018 ( Subtotal = $111,750 )
2018	2018	CALIFORNIA STATE UNIVERSITY SAN MARCOS CORPORATION	435 E CARMEL ST	SAN MARCOS	CA	92078	SAN DIEGO	USA	Biomedical Research and Research Training	000	2	6/20/2018	NON-COMPETING CONTINUATION	$111,750
														Subtotal = $111,750

Issue Date FY: 2017 ( Subtotal = $104,400 )
2017	2017	UNIVERSITY AUXILIARY AND RESEARCH SERVICES CORPORATION	435 E CARMEL ST	SAN MARCOS	CA	92078	SAN DIEGO	USA	Biomedical Research and Research Training	000	1	9/14/2017	NEW	$104,400
														Subtotal = $104,400

Grand Total All Awards = $295,668

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Understanding Biomineralization in Coccolithophores by Comparative Genomic, Transcriptomic and Epigenetic Analyses

Award Number: SC3GM122659

ORGANIZATION: NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES

OPDIV: NIH

AWARD CLASS: DISCRETIONARY

AWARD ACTIVITY TYPE: SCIENTIFIC/HEALTH RESEARCH (INCLUDES SURVEYS)

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