Makkuni Jayaram

Summary

Affiliation: University of Texas
Country: USA

Publications

  1. doi Topological similarity between the 2μm plasmid partitioning locus and the budding yeast centromere: evidence for a common evolutionary origin?
    Makkuni Jayaram
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, U S A
    Biochem Soc Trans 41:501-7. 2013
  2. pmc A novel role for the mitotic spindle during DNA segregation in yeast: promoting 2 microm plasmid-cohesin association
    Shwetal Mehta
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    Mol Cell Biol 25:4283-98. 2005
  3. pmc Electrostatic suppression allows tyrosine site-specific recombination in the absence of a conserved catalytic arginine
    Paul A Rowley
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, Texas 78712, USA
    J Biol Chem 285:22976-85. 2010
  4. pmc The selfish yeast plasmid uses the nuclear motor Kip1p but not Cin8p for its localization and equal segregation
    Hong Cui
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    J Cell Biol 185:251-64. 2009
  5. pmc The centromere-specific histone variant Cse4p (CENP-A) is essential for functional chromatin architecture at the yeast 2-microm circle partitioning locus and promotes equal plasmid segregation
    Sujata Hajra
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    J Cell Biol 174:779-90. 2006
  6. pmc Restoration of catalytic functions in Cre recombinase mutants by electrostatic compensation between active site and DNA substrate
    Aashiq H Kachroo
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    Nucleic Acids Res 38:6589-601. 2010
  7. ncbi Mechanisms for chromosome and plasmid segregation
    Santanu Kumar Ghosh
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, Texas 78712 0612, USA
    Annu Rev Biochem 75:211-41. 2006
  8. ncbi Site-specific recombination and partitioning systems in the stable high copy propagation of the 2-micron yeast plasmid
    Makkuni Jayaram
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    Prog Nucleic Acid Res Mol Biol 77:127-72. 2004
  9. ncbi Segregation of the yeast plasmid: similarities and contrasts with bacterial plasmid partitioning
    Makkuni Jayaram
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    Plasmid 51:162-78. 2004
  10. pmc Temporal sequence and cell cycle cues in the assembly of host factors at the yeast 2 micron plasmid partitioning locus
    Chien Hui Ma
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    Nucleic Acids Res 41:2340-53. 2013

Collaborators

Detail Information

Publications30

  1. doi Topological similarity between the 2μm plasmid partitioning locus and the budding yeast centromere: evidence for a common evolutionary origin?
    Makkuni Jayaram
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, U S A
    Biochem Soc Trans 41:501-7. 2013
    ..cerevisiae centromere and STB in vivo in their functional states, unveiled by recent experiments, bolsters the notion of their potential descent from an ancestral plasmid partitioning locus...
  2. pmc A novel role for the mitotic spindle during DNA segregation in yeast: promoting 2 microm plasmid-cohesin association
    Shwetal Mehta
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    Mol Cell Biol 25:4283-98. 2005
    ..These results are consistent with a model in which the spindle promotes plasmid segregation in a chromosome-linked fashion...
  3. pmc Electrostatic suppression allows tyrosine site-specific recombination in the absence of a conserved catalytic arginine
    Paul A Rowley
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, Texas 78712, USA
    J Biol Chem 285:22976-85. 2010
    ..Loss of a catalytically crucial positively charged side chain can thus be suppressed by a compensatory modification in the DNA substrate that neutralizes the negative charge on the scissile phosphate...
  4. pmc The selfish yeast plasmid uses the nuclear motor Kip1p but not Cin8p for its localization and equal segregation
    Hong Cui
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    J Cell Biol 185:251-64. 2009
    ..Exploiting Kip1p, which is subsidiary to Cin8p for chromosome segregation, to direct itself to a "partitioning center" represents yet another facet of the benign parasitism of the yeast plasmid...
  5. pmc The centromere-specific histone variant Cse4p (CENP-A) is essential for functional chromatin architecture at the yeast 2-microm circle partitioning locus and promotes equal plasmid segregation
    Sujata Hajra
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    J Cell Biol 174:779-90. 2006
    ..Poaching of a specific histone variant by the plasmid to mark its partitioning locus with a centromere tag reveals yet another one of the molecular trickeries it performs for achieving chromosome- like fidelity in segregation...
  6. pmc Restoration of catalytic functions in Cre recombinase mutants by electrostatic compensation between active site and DNA substrate
    Aashiq H Kachroo
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    Nucleic Acids Res 38:6589-601. 2010
    ..They have general implications in active site mechanisms that promote important phosphoryl transfer reactions in nucleic acids...
  7. ncbi Mechanisms for chromosome and plasmid segregation
    Santanu Kumar Ghosh
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, Texas 78712 0612, USA
    Annu Rev Biochem 75:211-41. 2006
    ..Rather surprisingly, the yeast plasmid 2-micron circle also resorts to a similar scheme for equal partitioning during mitosis...
  8. ncbi Site-specific recombination and partitioning systems in the stable high copy propagation of the 2-micron yeast plasmid
    Makkuni Jayaram
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    Prog Nucleic Acid Res Mol Biol 77:127-72. 2004
  9. ncbi Segregation of the yeast plasmid: similarities and contrasts with bacterial plasmid partitioning
    Makkuni Jayaram
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    Plasmid 51:162-78. 2004
    ..We suggest that the two systems facilitate these common logistical steps by adapting to the physical, biochemical, and mechanical contexts in which the host chromosomes segregate...
  10. pmc Temporal sequence and cell cycle cues in the assembly of host factors at the yeast 2 micron plasmid partitioning locus
    Chien Hui Ma
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    Nucleic Acids Res 41:2340-53. 2013
    ..Shared functional attributes of STB and centromere (CEN) are consistent with a potential evolutionary link between them...
  11. pmc Cse4 (CenH3) association with the Saccharomyces cerevisiae plasmid partitioning locus in its native and chromosomally integrated states: implications in centromere evolution
    Chu Chun Huang
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    Mol Cell Biol 31:1030-40. 2011
    ..The remarkable ability of STB to acquire a very specialized, and strictly regulated, chromosome segregation factor suggests its plausible evolutionary kinship with CEN...
  12. pmc Reactions of Cre with methylphosphonate DNA: similarities and contrasts with Flp and vaccinia topoisomerase
    Chien Hui Ma
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, Texas, United States of America
    PLoS ONE 4:e7248. 2009
    ..These findings are consistent with a potential role for phosphate electrostatics and active site electrostatics in protecting DNA relaxation and site-specific recombination, respectively, against abortive hydrolysis...
  13. ncbi Stable propagation of 'selfish' genetic elements
    Soundarapandian Velmurugan
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    J Biosci 28:623-36. 2003
    ..The partitioning systems of these plasmids appear to make use of a molecular trick by which the plasmids feed into the segregation pathway established for the host chromosomes...
  14. doi The 2 micron plasmid of Saccharomyces cerevisiae: a miniaturized selfish genome with optimized functional competence
    Keng Ming Chan
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    Plasmid 70:2-17. 2013
    ..A particularly interesting, and perhaps less well known and underappreciated, application of Flp in revealing unique DNA topologies required to confer functional competence to DNA-protein machines is discussed...
  15. pmc Histone H3-variant Cse4-induced positive DNA supercoiling in the yeast plasmid has implications for a plasmid origin of a chromosome centromere
    Chu Chun Huang
    Section of Molecular Genetics and Microbiology and Institute for Cellular and Molecular Biology, University of Texas, Austin, TX 78712, USA
    Proc Natl Acad Sci U S A 108:13671-6. 2011
    ....
  16. pmc Active site electrostatics protect genome integrity by blocking abortive hydrolysis during DNA recombination
    Chien Hui Ma
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, TX 78712, USA
    EMBO J 28:1745-56. 2009
    ....
  17. pmc Faithful segregation of the multicopy yeast plasmid through cohesin-mediated recognition of sisters
    Santanu K Ghosh
    Section of Molecular Genetics and Microbiology, University of Texas, Austin, TX 78712, USA
    Proc Natl Acad Sci U S A 104:13034-9. 2007
    ..Through binary fluorescence tagging, we reveal that segregation of replicated plasmids occurs in a sister-to-sister fashion. Thus, cohesin serves the same fundamental purpose in plasmid and chromosome segregation...
  18. pmc Co-segregation of yeast plasmid sisters under monopolin-directed mitosis suggests association of plasmid sisters with sister chromatids
    Yen Ting Liu
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    Nucleic Acids Res 41:4144-58. 2013
    ..Our results are accommodated by a model in which spindle- and cohesin-dependent association of plasmid sisters with sister chromatids promotes their segregation by a hitchhiking mechanism...
  19. ncbi The Mu transposase interwraps distant DNA sites within a functional transpososome in the absence of DNA supercoiling
    Zhiqi Yin
    Section of Molecular Genetics and Microbiology and Institute of Cellular and Molecular Biology, University of Texas, Austin, TX 78712, USA
    J Biol Chem 280:6149-56. 2005
    ..We discuss the contribution of both MuA and DNA supercoiling to the 5-noded Mu synapse built at the 3-way junction...
  20. ncbi Organization of DNA partners and strand exchange mechanisms during Flp site-specific recombination analyzed by difference topology, single molecule FRET and single molecule TPM
    Chien Hui Ma
    Section of Molecular Genetics and Microbiology, Institute of Cell and Molecular Biology, University of Texas at Austin, Austin, TX 78712, USA
    J Mol Biol 426:793-815. 2014
    ..The cumulative topological, smFRET and smTPM results have implications for the relative orientation of DNA partners and the directionality of strand exchange during recombination mediated by tyrosine site-specific recombinases. ..
  21. ncbi Recombination of hybrid target sites by binary combinations of Flp variants: mutations that foster interprotomer collaboration and enlarge substrate tolerance
    Jay H Konieczka
    Molecular Genetics and Microbiology, University of Texas, Austin, 1 University Station A5000, Austin, TX 78712 0162, USA
    J Mol Biol 339:365-78. 2004
    ..The ability to overcome the constraints of binding site symmetry in Flp recombination has important implications in the targeted manipulations of genomes...
  22. ncbi Split target specificity of ResT: a design for protein delivery, site selectivity and regulation of enzyme activity?
    Makkuni Jayaram
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    Mol Microbiol 64:575-9. 2007
    ..This bi-specificity in binding is likely to be important in protein delivery, substrate selection and regulation of enzyme activity...
  23. pmc Unveiling hidden catalytic contributions of the conserved His/Trp-III in tyrosine recombinases: assembly of a novel active site in Flp recombinase harboring alanine at this position
    Chien Hui Ma
    Molecular Genetics and Microbiology, University of Texas, Austin, 1 University Station A5000, Austin, TX 78712 0162, USA
    J Mol Biol 368:183-96. 2007
    ..Successful suppression suggests the possibility of evolving, by design, new active site configurations for tyrosine recombination...
  24. ncbi Interactions of phage Mu enhancer and termini that specify the assembly of a topologically unique interwrapped transpososome
    Zhiqi Yin
    Section of Molecular Genetics and Microbiology and Institute of Cellular and Molecular Biology, University of Texas at Austin, Austin, TX 78712, USA
    J Mol Biol 372:382-96. 2007
    ..The model reveals straightforward geometric and topological relationships between the IW complex and a more relaxed enhancer-independent V-form of the transpososome assembled under altered reaction conditions...
  25. ncbi Selfishness in moderation: evolutionary success of the yeast plasmid
    Soundarapandian Velmurugan
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, Texas 78712, USA
    Curr Top Dev Biol 56:1-24. 2003
  26. pmc The 2 micron plasmid purloins the yeast cohesin complex: a mechanism for coupling plasmid partitioning and chromosome segregation?
    Shwetal Mehta
    Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    J Cell Biol 158:625-37. 2002
    ..Cohesin-mediated pairing and unpairing likely provides a counting mechanism for evenly partitioning plasmids either in association with or independently of the chromosomes...
  27. pmc A selfish DNA element engages a meiosis-specific motor and telomeres for germ-line propagation
    Soumitra Sau
    Department of Molecular Biosciences, University of Texas at Austin, Austin, TX 78712
    J Cell Biol 205:643-61. 2014
    ..This hitherto uncharacterized mode of germ-line transmission by a selfish genetic element signifies a mechanistic variation within the shared theme of chromosome-coupled plasmid segregation during mitosis and meiosis. ..
  28. pmc A unique right end-enhancer complex precedes synapsis of Mu ends: the enhancer is sequestered within the transpososome throughout transposition
    Shailja Pathania
    Section of Molecular Genetics and Microbiology and Institute of Cellular and Molecular Biology, University of Texas at Austin, Austin, TX 78712, USA
    EMBO J 22:3725-36. 2003
    ..However, L-R interactions within LER appear to be flexible. Unexpectedly, the enhancer was seen to persist within the transpososome through cleavage and strand transfer of Mu ends to target DNA...
  29. pmc Real-time single-molecule tethered particle motion analysis reveals mechanistic similarities and contrasts of Flp site-specific recombinase with Cre and λ Int
    Hsiu Fang Fan
    Department of Life Sciences and Institute of Genome Sciences, National Yang Ming University, Taipei 112, Taiwan
    Nucleic Acids Res 41:7031-47. 2013
    ..The commitment and directionality of Flp recombination revealed by TPM is consistent with the physiological role of Flp in amplifying plasmid DNA. ..
  30. ncbi Stepwise manipulation of DNA specificity in Flp recombinase: progressively adapting Flp to individual and combinatorial mutations in its target site
    Yuri Voziyanov
    Section of Molecular Genetics and Microbiology, University of Texas, Austin, TX 78712 1095, USA
    J Mol Biol 326:65-76. 2003
    ..Our results suggest that combined DNA shuffling and mutagenesis of libraries of Flp variants active on distinct mFRTs can yield variants that can recombine mFRTs containing combinations of the individual mutations...