Daniel Jeffares

lecturer
University of York
Daniel Jeffares conducts research in molecular evolution. His principle interest is in discovering and describing how genes, genomes and cellular biology interacts with the processes of molecular evolution. He is organism-agnostic, having worked on plants (maize, Arabidopsis), a metazoan (the worm C. elegans), an avleolate (Plasmodium), a fungus (Schizosaccharomyces pombe), as well as more theoretical & comparative genomics projects. He has also looked at both very ancient events (eg: the RNA world) or very recent events (eg: malaria parasite diversity) and found interesting phenomena. He is currently a lecturer at the University of York. His current research is to use the fission yeast as a model for genome function and evolution.

Publications

  • LaSSO, a strategy for genome-wide mapping of intronic lariats and branch-points using RNA-seq. DOI: 10.1101/gr.166819.113
  • PoolHap: inferring haplotype frequencies from pooled samples by next generation sequencing. DOI: 10.1371/journal.pone.0015292
  • Long- and short-term selective forces on malaria parasite genomes. DOI: 10.1371/journal.pgen.1001099
  • An overview of the introns-first theory. DOI: 10.1007/s00239-009-9279-5
  • Evolutionarily stable association of intronic snoRNAs and microRNAs with their host genes. DOI: 10.1093/gbe/evp045
  • Rapidly regulated genes are intron poor. DOI: 10.1016/j.tig.2008.05.006
  • Genome-wide discovery and verification of novel structured RNAs in Plasmodium falciparum. DOI: 10.1101/gr.6836108
  • Comparative genomic analysis of three Leishmania species that cause diverse human disease. DOI: 10.1038/ng2053
  • Genome variation and evolution of the malaria parasite Plasmodium falciparum. DOI: 10.1038/ng1931
  • The biology of intron gain and loss. DOI: 10.1016/j.tig.2005.10.006
  • Outsourcing the nucleus: nuclear pore complex genes are no longer encoded in nucleomorph genomes. PMID: 19455199
  • Differences in non-LTR retrotransposons within C. elegans and C. briggsae genomes. DOI: 10.1016/j.gene.2004.01.003
  • A description of the Mei2-like protein family; structure, phylogenetic distribution and biological context. DOI: 10.1007/s00427-004-0384-6
  • Diversification of genes encoding mei2 -like RNA binding proteins in plants. DOI: 10.1023/B:PLAN.0000040819.33383.b6
  • Direct isolation of poly(A)+ RNA from 4 M guanidine thiocyanate-lysed cell extracts using locked nucleic acid-oligo(T) capture. DOI: 10.1093/nar/gnh056
  • Eukaryotic intron loss. DOI: 10.1126/science.1080559
  • JAWS: just add water system - a device for detection of nucleic acids in Martian ice caps.
  • Early evolution: prokaryotes, the new kids on the block. DOI: 10.1002/(SICI)1521-1878(199910)21:10<880::AID-BIES11>3.0.CO;2-P
  • Relics from the RNA world. DOI: 10.1007/PL00006280
  • The path from the RNA world. DOI: 10.1007/PL00006275
  • Temperature-dependence of carbon acquisition and demand in relation to shoot growth of kiwifruit (Actinidia deliciosa) vines grown in controlled environments ISSN: 0310-7841
  • PCR amplification of the fas-1 gene for the detection of virulent strains of Rhodococcus fascians. DOI: 10.1046/j.1365-3059.1996.d01-154.x
  • Pre-rRNA processing and the path from the RNA world. DOI: 10.1016/S0968-0004(00)89053-2

Daniel's public data