Yin Long Qiu

Summary

Affiliation: University of Michigan
Country: USA

Publications

  1. pmc The mitochondrial genome of the lycophyte Huperzia squarrosa: the most archaic form in vascular plants
    Yang Liu
    Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, Michigan, United States of America
    PLoS ONE 7:e35168. 2012
  2. pmc The mitochondrial genomes of the early land plants Treubia lacunosa and Anomodon rugelii: dynamic and conservative evolution
    Yang Liu
    Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, Michigan, United States of America
    PLoS ONE 6:e25836. 2011
  3. pmc Mitochondrial matR sequences help to resolve deep phylogenetic relationships in rosids
    Xin Yu Zhu
    State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, The Chinese Academy of Sciences, Beijing 100093, China
    BMC Evol Biol 7:217. 2007
  4. pmc Phylogenetic inference in Rafflesiales: the influence of rate heterogeneity and horizontal gene transfer
    Daniel L Nickrent
    Department of Plant Biology, Southern Illinois University, Carbondale, IL 62901 6509, USA
    BMC Evol Biol 4:40. 2004
  5. ncbi request reprint Many independent origins of trans splicing of a plant mitochondrial group II intron
    Yin Long Qiu
    Department of Biology, Indiana University, Bloomington, IN 47405, USA
    J Mol Evol 59:80-9. 2004
  6. ncbi request reprint Phylogenetic distribution and evolution of mycorrhizas in land plants
    B Wang
    Department of Ecology and Evolutionary Biology, The University Herbarium, University of Michigan, 830 N University Avenue, Ann Arbor, MI, 48109 1048, USA
    Mycorrhiza 16:299-363. 2006
  7. pmc The deepest divergences in land plants inferred from phylogenomic evidence
    Yin Long Qiu
    Department of Ecology and Evolutionary Biology, University Herbarium, University of Michigan, Ann Arbor, MI 48109 1048, USA
    Proc Natl Acad Sci U S A 103:15511-6. 2006
  8. ncbi request reprint Distribution of introns in the mitochondrial gene nad1 in land plants: phylogenetic and molecular evolutionary implications
    Olena Dombrovska
    Department of Ecology and Evolutionary Biology, University of Michigan, 830 North University Avenue, Ann Arbor, MI 48109 1048, USA
    Mol Phylogenet Evol 32:246-63. 2004
  9. doi request reprint The complete mitochondrial genome sequence of the liverwort Pleurozia purpurea reveals extremely conservative mitochondrial genome evolution in liverworts
    Bin Wang
    Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI 48109 1048, USA
    Curr Genet 55:601-9. 2009
  10. pmc Punctuated evolution of mitochondrial gene content: high and variable rates of mitochondrial gene loss and transfer to the nucleus during angiosperm evolution
    Keith L Adams
    Department of Biology, Indiana University, Bloomington, IN 47405, USA
    Proc Natl Acad Sci U S A 99:9905-12. 2002

Detail Information

Publications22

  1. pmc The mitochondrial genome of the lycophyte Huperzia squarrosa: the most archaic form in vascular plants
    Yang Liu
    Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, Michigan, United States of America
    PLoS ONE 7:e35168. 2012
    ....
  2. pmc The mitochondrial genomes of the early land plants Treubia lacunosa and Anomodon rugelii: dynamic and conservative evolution
    Yang Liu
    Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, Michigan, United States of America
    PLoS ONE 6:e25836. 2011
    ..However, evolution of this organellar genome has remained rather conservative since the origin and initial radiation of early land plants, except within vascular plants...
  3. pmc Mitochondrial matR sequences help to resolve deep phylogenetic relationships in rosids
    Xin Yu Zhu
    State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, The Chinese Academy of Sciences, Beijing 100093, China
    BMC Evol Biol 7:217. 2007
    ..We also inferred phylogenetic relationships within the "rosid clade" based on a combined data set of 91 taxa and four genes including matR, two plastid genes (rbcL, atpB), and one nuclear gene (18S rDNA)...
  4. pmc Phylogenetic inference in Rafflesiales: the influence of rate heterogeneity and horizontal gene transfer
    Daniel L Nickrent
    Department of Plant Biology, Southern Illinois University, Carbondale, IL 62901 6509, USA
    BMC Evol Biol 4:40. 2004
    ..Here we provide molecular phylogenetic evidence using DNA sequence data from mitochondrial and nuclear genes for representatives of all genera in Rafflesiales...
  5. ncbi request reprint Many independent origins of trans splicing of a plant mitochondrial group II intron
    Yin Long Qiu
    Department of Biology, Indiana University, Bloomington, IN 47405, USA
    J Mol Evol 59:80-9. 2004
    ....
  6. ncbi request reprint Phylogenetic distribution and evolution of mycorrhizas in land plants
    B Wang
    Department of Ecology and Evolutionary Biology, The University Herbarium, University of Michigan, 830 N University Avenue, Ann Arbor, MI, 48109 1048, USA
    Mycorrhiza 16:299-363. 2006
    ..Fourth, mycoheterotrophy and loss of the mycorrhizal condition also evolved many times independently in land plants through parallel evolution...
  7. pmc The deepest divergences in land plants inferred from phylogenomic evidence
    Yin Long Qiu
    Department of Ecology and Evolutionary Biology, University Herbarium, University of Michigan, Ann Arbor, MI 48109 1048, USA
    Proc Natl Acad Sci U S A 103:15511-6. 2006
    ..In particular, it is shown here that densely sampled taxon trees built with multiple genes provide an indispensable test of taxon-sparse trees inferred from genome sequences...
  8. ncbi request reprint Distribution of introns in the mitochondrial gene nad1 in land plants: phylogenetic and molecular evolutionary implications
    Olena Dombrovska
    Department of Ecology and Evolutionary Biology, University of Michigan, 830 North University Avenue, Ann Arbor, MI 48109 1048, USA
    Mol Phylogenet Evol 32:246-63. 2004
    ..Potentially heavy RNA editing was observed in nad1 of Haplomitrium Dedecek, Takakia Hatt. & Inoue, hornworts, Isoetes L., Ophioglossum, and Asplenium. A new nomenclature is proposed for group II introns...
  9. doi request reprint The complete mitochondrial genome sequence of the liverwort Pleurozia purpurea reveals extremely conservative mitochondrial genome evolution in liverworts
    Bin Wang
    Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI 48109 1048, USA
    Curr Genet 55:601-9. 2009
    ....
  10. pmc Punctuated evolution of mitochondrial gene content: high and variable rates of mitochondrial gene loss and transfer to the nucleus during angiosperm evolution
    Keith L Adams
    Department of Biology, Indiana University, Bloomington, IN 47405, USA
    Proc Natl Acad Sci U S A 99:9905-12. 2002
    ..Most of these mitochondrial gene losses are probably the consequence of gene transfer to the nucleus; thus, rates of functional gene transfer also may vary dramatically in angiosperms...
  11. pmc Mitochondrial substitution rates are extraordinarily elevated and variable in a genus of flowering plants
    Yangrae Cho
    Department of Biology, Indiana University, Bloomington, IN 47405 3700, USA
    Proc Natl Acad Sci U S A 101:17741-6. 2004
    ....
  12. doi request reprint Presence of three mycorrhizal genes in the common ancestor of land plants suggests a key role of mycorrhizas in the colonization of land by plants
    Bin Wang
    Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI 48109, USA
    New Phytol 186:514-25. 2010
    ..The evidence presented here strongly suggests that plant-mycorrhizal fungus symbiosis was one of the key processes that contributed to the origin of land flora...
  13. doi request reprint The complete mitochondrial genome sequence of the hornwort Phaeoceros laevis: retention of many ancient pseudogenes and conservative evolution of mitochondrial genomes in hornworts
    Jia Yu Xue
    Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI 48109 1048, USA
    Curr Genet 56:53-61. 2010
    ..These data indicate that mitochondrial genome evolution in hornworts is less conservative than in liverworts, but has not reached the dynamic level as seen in seed plants...
  14. pmc Multiple major increases and decreases in mitochondrial substitution rates in the plant family Geraniaceae
    Christopher L Parkinson
    Department of Biology, Indiana University, Bloomington, IN 47405 3700, USA
    BMC Evol Biol 5:73. 2005
    ..Only a single case of extensive, mitochondrial-specific rate changes has been described, in the angiosperm genus Plantago...
  15. ncbi request reprint Azolla--a model organism for plant genomic studies
    Yin Long Qiu
    Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI 48109 1048, USA
    Genomics Proteomics Bioinformatics 1:15-25. 2003
    ..Together with the strategic and technical improvement as well as cost reduction of DNA sequencing, the deciphering of their genetic code is imminent...
  16. doi request reprint The complete mitochondrial genome sequence of the hornwort Megaceros aenigmaticus shows a mixed mode of conservative yet dynamic evolution in early land plant mitochondrial genomes
    Libo Li
    Department of Ecology and Evolutionary Biology, The University Herbarium, University of Michigan, Ann Arbor, MI 48109 1048, USA
    J Mol Evol 68:665-78. 2009
    ..Overall, this genome and those of other 2 bryophytes show that mitochondrial genomes in early land plants, unlike their seed plant counterparts, exhibit a mixed mode of conservative yet dynamic evolution...
  17. pmc Did RNA editing in plant organellar genomes originate under natural selection or through genetic drift?
    Richard W Jobson
    Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, Michigan 48109 1048, USA
    Biol Direct 3:43. 2008
    ....
  18. doi request reprint Amino acid compositional shifts during streptophyte transitions to terrestrial habitats
    Richard W Jobson
    Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI 48109 1048, USA
    J Mol Evol 72:204-14. 2011
    ..These results suggest that amino acid compositional shifts in extra-membrane regions of plastid and mitochondrial proteins may represent biochemical adaptations that allowed green plants to colonize the land...
  19. pmc Taking the first steps towards a standard for reporting on phylogenies: Minimum Information About a Phylogenetic Analysis (MIAPA)
    Jim Leebens-Mack
    Department of Biology, Institute of Molecular Evolutionary Genetics, and Huck Institutes of Life Sciences, Pennsylvania State University, University Park, Pennsylvania, USA
    OMICS 10:231-7. 2006
    ..Key in the successful development and implementation of such a standard will be broad participation by developers of phylogenetic analysis software, phylogenetic database developers, practitioners of phylogenomics, and journal editors...
  20. doi request reprint Phylogenetic and biogeographic complexity of Magnoliaceae in the Northern Hemisphere inferred from three nuclear data sets
    Ze Long Nie
    Laboratory of Biodiversity and Biogeography, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, PR China
    Mol Phylogenet Evol 48:1027-40. 2008
    ..The others may have occurred no later than the Oligocene, with ancient separations between or within tropical and temperate lineages...
  21. ncbi request reprint Genome-scale data, angiosperm relationships, and "ending incongruence": a cautionary tale in phylogenetics
    Douglas E Soltis
    Department of Botany and the Genetics Institute, University of Florida, Gainesville, FL 32611, USA
    Trends Plant Sci 9:477-83. 2004
    ..We provide a conspicuous example that includes Amborella, the putative sister of all other extant angiosperms, highlighting the limits of phylogenetics when whole genomes are used but taxon sampling is poor...
  22. doi request reprint Resolving an ancient, rapid radiation in Saxifragales
    Shuguang Jian
    South China Botanical Garden, The Chinese Academy of Sciences, Guangzhou, China
    Syst Biol 57:38-57. 2008
    ..Extrapolating from Saxifragales, a similar number of base pairs may be needed to resolve the many other deep-level radiations of comparable age in angiosperms...