Michael Kladde

Michael Kladde,

PROFESSOR

Department: MD-BIOCHEM / MOLECULAR BIOL
Business Phone: (352) 273-8142
Business Email: kladde@ufl.edu

About Michael Kladde

Teaching Profile

Courses Taught
2007-2018,2020-2023
GMS6195 Epigenetics Journal Club
2009-2023
DEN5121 Biochm Molec Cell Bio
2019,2021-2022
BCH6415 Advanced Molecular and Cell Biology
2013,2015-2018
BCH7412 Epigenetics of Human Disease and Development
2018
GMS7980 Research for Doctoral Dissertation
2014
GMS6015 Human Genetics II
2011-2012,2014
DEN6416C Basic Sciences Rev
2010
IDH4905 Individual Work
2009
IDH4917 Undergrad Research
2008
GMS5905 Special Topics in Biomedical Sciences

Research Profile

Open Researcher and Contributor ID (ORCID)

0000-0001-7951-9291

Publications

2022
Long-term epigenetic and metabolomic changes in the mouse ventricular myocardium after exertional heat stroke
Physiological Genomics. 54(12):486-500 [DOI] 10.1152/physiolgenomics.00147.2021.
2021
A Novel Single Cell RNA-seq Analysis of Non-Myeloid Circulating Cells in Late Sepsis.
Frontiers in immunology. 12 [DOI] 10.3389/fimmu.2021.696536. [PMID] 34484194.
2021
Exertional heat stroke leads to concurrent long-term epigenetic memory, immunosuppression and altered heat shock response in female mice.
The Journal of physiology. 599(1):119-141 [DOI] 10.1113/JP280518. [PMID] 33037634.
2021
Methylscaper: an R/shiny app for joint visualization of DNA methylation and nucleosome occupancy in single-molecule and single-cell data.
Bioinformatics (Oxford, England). 37(24):4857-9 [DOI] 10.1093/bioinformatics/btab438. [PMID] 34125875.
2021
Single-Cell RNA-seq of Human Myeloid-Derived Suppressor Cells in Late Sepsis Reveals Multiple Subsets With Unique Transcriptional Responses: A Pilot Study.
Shock (Augusta, Ga.). 55(5):587-595 [DOI] 10.1097/SHK.0000000000001671. [PMID] 33021571.
2020
Identification of Unique mRNA and miRNA Expression Patterns in Bone Marrow Hematopoietic Stem and Progenitor Cells After Trauma in Older Adults.
Frontiers in immunology. 11 [DOI] 10.3389/fimmu.2020.01289. [PMID] 32670283.
2019
Myeloid-derived suppressor cell function and epigenetic expression evolves over time after surgical sepsis.
Critical care (London, England). 23(1) [DOI] 10.1186/s13054-019-2628-x. [PMID] 31722736.
2018
Bcl11b is essential for licensing Th2 differentiation during helminth infection and allergic asthma.
Nature communications. 9(1) [DOI] 10.1038/s41467-018-04111-0. [PMID] 29700302.
2018
Publisher Correction: Bcl11b is essential for licensing Th2 differentiation during helminth infection and allergic asthma.
Nature communications. 9(1) [DOI] 10.1038/s41467-018-05360-9. [PMID] 30026604.
2016
High Fractional Occupancy of a Tandem Maf Recognition Element and Its Role in Long-Range β-Globin Gene Regulation.
Molecular and cellular biology. 36(2):238-50 [DOI] 10.1128/MCB.00723-15. [PMID] 26503787.
2015
Human lymphoid translocation fragile zones are hypomethylated and have accessible chromatin.
Molecular and cellular biology. 35(7):1209-22 [DOI] 10.1128/MCB.01085-14. [PMID] 25624348.
2015
Integrated DNA methylation and chromatin structural analysis at single-molecule resolution.
Methods in molecular biology (Clifton, N.J.). 1288:123-41 [DOI] 10.1007/978-1-4939-2474-5_9. [PMID] 25827879.
2014
Multiplex mapping of chromatin accessibility and DNA methylation within targeted single molecules identifies epigenetic heterogeneity in neural stem cells and glioblastoma.
Genome research. 24(2):329-39 [DOI] 10.1101/gr.161737.113. [PMID] 24105770.
2014
TRIM29 suppresses TWIST1 and invasive breast cancer behavior.
Cancer research. 74(17):4875-87 [DOI] 10.1158/0008-5472.CAN-13-3579. [PMID] 24950909.
2013
Epigenetic diversity of Kaposi’s sarcoma-associated herpesvirus.
Nucleic acids research. 41(5):2993-3009 [DOI] 10.1093/nar/gkt033. [PMID] 23361465.
2013
Local depletion of DNA methylation identifies a repressive p53 regulatory region in the NEK2 promoter.
The Journal of biological chemistry. 288(50):35940-51 [DOI] 10.1074/jbc.M113.523837. [PMID] 24163369.
2013
Microbiota impact on the epigenetic regulation of colorectal cancer.
Trends in molecular medicine. 19(12):714-25 [DOI] 10.1016/j.molmed.2013.08.005. [PMID] 24051204.
2013
The ZEB1 pathway links glioblastoma initiation, invasion and chemoresistance.
EMBO molecular medicine. 5(8):1196-212 [DOI] 10.1002/emmm.201302827. [PMID] 23818228.
2012
DNA methyltransferase accessibility protocol for individual templates by deep sequencing.
Methods in enzymology. 513:185-204 [DOI] 10.1016/B978-0-12-391938-0.00008-2. [PMID] 22929770.
2012
Fibroblast growth factor receptor 2 homodimerization rapidly reduces transcription of the pluripotency gene Nanog without dissociation of activating transcription factors.
The Journal of biological chemistry. 287(36):30507-17 [DOI] 10.1074/jbc.M112.388181. [PMID] 22787153.
2012
Simultaneous single-molecule detection of endogenous C-5 DNA methylation and chromatin accessibility using MAPit.
Methods in molecular biology (Clifton, N.J.). 833:125-41 [DOI] 10.1007/978-1-61779-477-3_9. [PMID] 22183592.
2011
MethylViewer: computational analysis and editing for bisulfite sequencing and methyltransferase accessibility protocol for individual templates (MAPit) projects.
Nucleic acids research. 39(1) [DOI] 10.1093/nar/gkq716. [PMID] 20959287.
2011
Restraint of angiogenesis by zinc finger transcription factor CTCF-dependent chromatin insulation.
Proceedings of the National Academy of Sciences of the United States of America. 108(37):15231-6 [DOI] 10.1073/pnas.1104662108. [PMID] 21896759.
2011
Simultaneous single-molecule mapping of protein-DNA interactions and DNA methylation by MAPit.
Current protocols in molecular biology. Chapter 21 [DOI] 10.1002/0471142727.mb2122s95. [PMID] 21732317.
2011
WIF1 is a frequent target for epigenetic silencing in squamous cell carcinoma of the cervix.
Carcinogenesis. 32(11):1625-33 [DOI] 10.1093/carcin/bgr193. [PMID] 21873353.
2010
Bisulfite sequencing of DNA.
Current protocols in molecular biology. Chapter 7:Unit 7.9.1-17 [DOI] 10.1002/0471142727.mb0709s91. [PMID] 20583099.
2010
SWI/SNF has intrinsic nucleosome disassembly activity that is dependent on adjacent nucleosomes.
Molecular cell. 38(4):590-602 [DOI] 10.1016/j.molcel.2010.02.040. [PMID] 20513433.
2009
Coupling phosphate homeostasis to cell cycle-specific transcription: mitotic activation of Saccharomyces cerevisiae PHO5 by Mcm1 and Forkhead proteins.
Molecular and cellular biology. 29(18):4891-905 [DOI] 10.1128/MCB.00222-09. [PMID] 19596791.
2009
DNA methyltransferase probing of chromatin structure within populations and on single molecules.
Methods in molecular biology (Clifton, N.J.). 523:41-65 [DOI] 10.1007/978-1-59745-190-1_4. [PMID] 19381922.
2008
Single-molecule analysis of chromatin: changing the view of genomes one molecule at a time.
Journal of cellular biochemistry. 105(2):330-7 [DOI] 10.1002/jcb.21849. [PMID] 18615586.
2007
Single-molecule and population probing of chromatin structure using DNA methyltransferases.
Methods (San Diego, Calif.). 41(3):320-32 [PMID] 17309843.
2006
Active PHO5 chromatin encompasses variable numbers of nucleosomes at individual promoters.
Nature structural & molecular biology. 13(3):256-63 [PMID] 16491089.
2006
DNA methyltransferase probing of DNA-protein interactions.
Methods in molecular biology (Clifton, N.J.). 338:225-44 [PMID] 16888362.
2005
Promoter occupancy is a major determinant of chromatin remodeling enzyme requirements.
Molecular and cellular biology. 25(7):2698-707 [PMID] 15767675.
2004
Conserved properties of HP1(Hsalpha).
Gene. 336(1):37-46 [PMID] 15225874.
2004
Effectors of lysine 4 methylation of histone H3 in Saccharomyces cerevisiae are negative regulators of PHO5 and GAL1-10.
The Journal of biological chemistry. 279(32):33057-62 [PMID] 15180994.
2004
Mapping chromatin structure in vivo using DNA methyltransferases.
Methods (San Diego, Calif.). 33(1):68-80 [PMID] 15039089.
2003
Polyphosphate loss promotes SNF/SWI- and Gcn5-dependent mitotic induction of PHO5.
Molecular and cellular biology. 23(11):3788-97 [PMID] 12748282.
2003
Site-selective in vivo targeting of cytosine-5 DNA methylation by zinc-finger proteins.
Nucleic acids research. 31(22):6493-501 [PMID] 14602907.
2003
Targeted cytosine methylation for in vivo detection of protein-DNA interactions.
Proceedings of the National Academy of Sciences of the United States of America. 100(13):7743-8 [PMID] 12808133.
2001
Transcriptional activation of deoxyribonucleic acid polymerase alpha gene expression in MCF-7 cells by 17 beta-estradiol.
Endocrinology. 142(3):1000-8 [PMID] 11181512.
2000
Transcriptional activation of transforming growth factor alpha by estradiol: requirement for both a GC-rich site and an estrogen response element half-site.
Journal of molecular endocrinology. 24(3):329-38 [PMID] 10828826.
2000
Tup1p represses Mcm1p transcriptional activation and chromatin remodeling of an a-cell-specific gene.
The EMBO journal. 19(21):5875-83 [PMID] 11060038.
1999
DNA methyltransferases as probes for chromatin structure in yeast.
Methods in molecular biology (Clifton, N.J.). 119:395-416 [PMID] 10804528.
1999
DNA methyltransferases as probes of chromatin structure in vivo.
Methods in enzymology. 304:431-47 [PMID] 10372375.
1999
Mechanisms of transcriptional activation of bcl-2 gene expression by 17beta-estradiol in breast cancer cells.
The Journal of biological chemistry. 274(45):32099-107 [PMID] 10542244.
1999
Transcriptional activation of c-fos protooncogene by 17beta-estradiol: mechanism of aryl hydrocarbon receptor-mediated inhibition.
Molecular endocrinology (Baltimore, Md.). 13(9):1511-21 [PMID] 10478842.
1998
Cloning, characterization and expression of the gene coding for a cytosine-5-DNA methyltransferase recognizing GpC.
Nucleic acids research. 26(17):3961-6 [PMID] 9705505.
1998
Gal4p-mediated chromatin remodeling depends on binding site position in nucleosomes but does not require DNA replication.
Molecular and cellular biology. 18(3):1201-12 [PMID] 9488435.
1998
Rapid detection of functional expression of C-5-DNA methyltransferases in yeast.
Nucleic acids research. 26(5):1354-5 [PMID] 9469849.
1998
Sth1p, a Saccharomyces cerevisiae Snf2p/Swi2p homolog, is an essential ATPase in RSC and differs from Snf/Swi in its interactions with histones and chromatin-associated proteins.
Genetics. 150(3):987-1005 [PMID] 9799253.
1997
Effects of Sin- versions of histone H4 on yeast chromatin structure and function.
The EMBO journal. 16(8):2086-95 [PMID] 9155034.
1996
Chromatin structure mapping in vivo using methyltransferases.
Methods in enzymology. 274:214-33 [PMID] 8902807.
1996
Direct study of DNA-protein interactions in repressed and active chromatin in living cells.
The EMBO journal. 15(22):6290-300 [PMID] 8947052.
1994
Positioned nucleosomes inhibit Dam methylation in vivo.
Proceedings of the National Academy of Sciences of the United States of America. 91(4):1361-5 [PMID] 8108416.
1994
The non-B-DNA structure of d(CA/TG)n differs from that of Z-DNA.
Proceedings of the National Academy of Sciences of the United States of America. 91(5):1898-902 [PMID] 8127902.
1993
Interaction between transcription regulatory regions of prolactin chromatin.
Science (New York, N.Y.). 261(5118):203-6 [PMID] 8327891.
1993
Multiple transitions to non-B-DNA structures occur in the distal regulatory region of the rat prolactin gene.
Journal of molecular biology. 229(2):344-67 [PMID] 8429551.
1993
Nucleosome positioning and transcription.
Cold Spring Harbor symposia on quantitative biology. 58:237-45 [PMID] 7956034.
1989
Transcriptional regulation by estrogen of episomal prolactin gene regulatory elements.
Molecular endocrinology (Baltimore, Md.). 3(2):305-14 [PMID] 2540428.
1986
Insulin activation of insulin receptor tyrosine kinase in intact rat adipocytes. An in vitro system to measure histone kinase activity of insulin receptors activated in vivo.
The Journal of biological chemistry. 261(10):4691-7 [PMID] 3007472.
1986
Regulation of epidermal growth factor receptor number and phosphorylation by fasting in rat liver.
The Journal of biological chemistry. 261(2):752-7 [PMID] 3001081.
Flap-enabled next-generation capture (FENGC): precision targeted single-molecule profiling of epigenetic heterogeneity, chromatin dynamics, and genetic variation
. [DOI] 10.1101/2022.11.08.515732.
Single-molecule long-read methylation profiling reveals regional DNA methylation regulated by Elongator Complex Subunit 2 inArabidopsisroots experiencing spaceflight
. [DOI] 10.1101/2022.11.09.515199.

Grants

May 2021 ACTIVE
Dysfunctional Myelopoiesis and Myeloid-Derived Suppressor Cells in Sepsis Pathobiology
Role: Principal Investigator
Funding: NATL INST OF HLTH NIGMS
Sep 2020 – Sep 2021
Bacteria-associated VB12 regulates neonatal ileal epithelium homeostasis
Role: Co-Investigator
Funding: NATL INST OF HLTH NIDDK
Sep 2019 ACTIVE
Epigenetic markers for susceptibility and recovery from exertional heat stroke
Role: Co-Investigator
Funding: US ARMY MED RES AND DEVELOPMENT COMMAND
Jul 2019 ACTIVE
The role of DNMT3A mutations in clonal heterogeneity and evolution of hematopoiesis
Role: Co-Investigator
Funding: NATL INST OF HLTH NIDDK
Jun 2018 ACTIVE
Immune Function and the Progression to Type 1 Diabetes
Role: Co-Investigator
Funding: NATL INST OF HLTH NIAID
Aug 2016 – Aug 2022
Development of Brassica as a low dose radiation biosensor
Role: Co-Project Director/Principal Investigator
Funding: DEFENSE THREAT REDUCTION AGENCY
Mar 2016 – Sep 2019
Temporal Epigenetic Mechanisms in Breast Cancer Oncogenesis
Role: Principal Investigator
Funding: FL DEPT OF HLTH BANKHEAD-COLEY CANCER RE
Jul 2015 ACTIVE
Florida Academic Cancer Center Alliance Seed Grants
Role: Project Manager
Funding: UF HEALTH SHANDS HOSPITAL
Feb 2015 ACTIVE
UF Health Cancer Center Pilot Project Grants funded through the Florida Consortium of National Cancer Institute Centers Program
Role: Project Manager
Funding: UF HEALTH SHANDS HOSPITAL
Mar 2011 – Feb 2017
LANA and Cellular Gene Expression
Role: Project Manager
Funding: NATL INST OF HLTH NCI
Jul 2006 – Dec 2020
21st Century Research & Economic Development Investment Program (REDIP)
Role: Project Manager
Funding: STATE UNIV SYS OF FL BOARD OF GOVERNORS

Contact Details

Phones:
Business:
(352) 273-8142
Emails:
Business:
kladde@ufl.edu
Addresses:
Business Mailing:
BOX 103633
2033 MOWRY RD
GAINESVILLE FL 32610
Business Street:
UNIVERSITY OF FLORIDA HEALTH CANCER CENTER
GAINESVILLE FL 32610