Evolutionary genomics of plant genes encoding N-terminal-TM-C2 domain proteins and the similar FAM62 genes and synaptotagmin genes of metazoans

BMC Genomics

Volumn 8, Issue , 2007, Pages

  Craxton, Molly ^a  

^a MRC LABORATORY OF MOLECULAR BIOLOGY   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

GENE PRODUCT; MEMBRANE PROTEIN; PROTEIN AM62; PROTEIN DOC2; PROTEIN NTMC2; RABPHILIN; SYNAPTOTAGMIN; UNCLASSIFIED DRUG; VEGETABLE PROTEIN;

ALTERNATIVE RNA SPLICING; AMINO ACID SEQUENCE; AMINO TERMINAL SEQUENCE; ARTICLE; CONTROLLED STUDY; EUKARYOTE; GENETIC CODE; GENETIC CONSERVATION; GENETIC SIMILARITY; INTRON; METAZOON; NONHUMAN; NUCLEOTIDE SEQUENCE; PLANT GENETICS; PROTEIN DATABASE; PROTEIN DOMAIN; RNA EDITING; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; STRUCTURAL GENOMICS; GENE; GENETICS; GENOME; MOLECULAR EVOLUTION; MOLECULAR GENETICS; MULTIGENE FAMILY;

ANIMALIA; EMBRYOPHYTA; EUKARYOTA; METAZOA;

BASE SEQUENCE; EVOLUTION, MOLECULAR; GENES, PLANT; GENOME, PLANT; MOLECULAR SEQUENCE DATA; MULTIGENE FAMILY; PLANT PROTEINS; SYNAPTOTAGMINS;

EID: 34548648653     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-8-259     Document Type: Article

References (44)

1. Perin MS Fried VA Mignery GA Jahn R Südhof TC Phospholipid binding by a synaptic vesicle protein homologous to the regulatory region of protein kinase Nature 1990 345 260-263 2333096
2. 2+ sensor for transmitter release at a central synapse Cell 1994 79 717-727 7954835
3. Craxton M Genomic analysis of synaptotagmin genes Genomics 2001 77 43-49 11543631
4. Craxton M Synaptotagmin gene content of the sequenced genomes BMC Genomics 2004 5 43 471550 15238157
5. Perin MS Johnston PA Ozcelik T Jahn R Franke U Südhof TC Structural and functional conservation of synaptotagmin (p65) in Drosophila and humans J Biol Chem 1991 266 615-622 1840599
6. DiAntonio A Parfitt KD Schwarz TL Synaptic transmission persists in synaptotagmin mutants of Drosophila Cell 1993 73 1281-1290 8100740
7. Littleton JT Bellen HJ Perin MS Expression of synaptotagmin in Drosophila reveals transport and localization of of synaptic vesicles to the synapse Development 1993 118 1077-1088 8269841
8. Nonet ML Grundahl K Meyer BJ Rand JB Synaptic function is impaired but not eliminated in C. elegans mutants lacking synaptotagmin Cell 1993 73 1291-1305 8391930
9. Adolfsen B Saraswati S Yoshihara M Littleton JT Synaptotagmins are trafficked to distinct subcellular domains including the postsynaptic compartment J Cell Biol 2004 166 249-260 15263020
10. 2+-triggered exocytosis Biochem J 2002 366 1-13 1222778 12047220
11. Craxton M Goedert MG Alternative splicing of synaptotagmins involving transmembrane exon skipping FEBS Lett 1999 460 417-422 10556508
12. Chowdhury D Travis GH Sutcliffe JG Burton FH Synaptotagmin I and 1B4 are identical: Implications for Synaptotagmin distribution in the primate brain Neurosci Lett 1995 190 9-12 7624059
13. Katsuyama Y Matsumoto J Okada T Ohtsuka Y Chen L Okado H Okamura Y Regulation of Synaptotagmin Gene Expression during Ascidian Embryogenesis Dev Biol 2002 244 293-304 11944938
14. Fukuda M Molecular cloning, expression, and characterization of a novel class of synaptotagmin (SytXIV) conserved from Drosophila to humans J Biochem 2003 133 641-649 12801916
15. 2+-sensor proteins with multiple C2 domains Proc Natl Acad Sci USA 2007 104 3823-3828 17360437
16. BaluŠka F Šamaj J Menzel D Polar transport of auxin: carrier-mediated flux across the plasma membrane or neurotransmitter-like secretion? TRENDS Cell Biol 2003 13 282-285 12791291
17. BaluŠka F Volkmann D Menzel D Plant synapses: Actin-based domains for cell-to-cell communication TRENDS Plant Sci 2005 10 106-111 15749467
18. Brenner ED Stahlberg R Mancuso S Vivanco J BaluŠka F Van Volkenberg E Plant neurobiology: An integrated view of plant signaling TRENDS Plant Sci 2006 11 413-418 16843034
19. National Center for Biotechnology Information http://www.ncbi.nlm.nih.gov/BLAST
20. Staden R Judge DP Bonfield JK Managing sequence projects in the GAP4 environment Introduction to Bioinformatics Humana Press Krawetz SA, Womble DD 2003 393-410
21. DOE Joint Genome Institute http://www.jgi.doe.gov/sequencing/why/CSP2005/ physcomitrella.html
22. NCBI Trace Archive http://www.ncbi.nlm.nih.gov/Traces
23. PHYSCObase http://moss.nibb.ac.jp/
24. Corpet F Multiple sequence alignment with hierarchical clustering Nucl Acids Res 1988 16 10881-10890 338945 2849754
25. HUGO gene nomenclature committee http://www.genenames.org
26. Reenan R Molecular determinants and guided evolution of species-specific RNA editing Nature 2005 434 409-413 15772668
27. Nakhost A Houeland G Blandford VE Castellucci VF Sossin W Identification and characterization of a novel C2B splice variant of synaptotagmin I J Neurochem 2004 89 354-363 15056279
28. Kwon OJ Gainer H Wray S Chin H Identification of a novel protein containing two C2 domains selectively expressed in the rat brain and kidney FEBS Lett 1996 378 135-139 8549819
29. Koonin EV Orthologs, Paralogs, and Evolutionary Genomics Annu Rev Genet 2005 39 309-338 16285863
30. Lee I Hong W Diverse membrane-associated proteins contain a novel SMP domain FASEB J 2006 20 202-206 16449791
31. Wormbase http://www.wormbase.org
32. Flybase http://flybase.bio.indiana.edu/
33. Hadley D Murphy T Valladares O Hannenhalli S Ungar L Kim J Bućan M Patterns of sequence conservation in presynaptic neural genes Genome Biol 2006 7 R105 1794582 17096848
34. Salzberg SL Genome re-annotation: A wiki solution Genome Biol 2007 8 102 1839116 17274839
35. Koonin EV Wolf YI Karev GP The structure of the protein universe and genome evolution Nature 2002 420 218-223 12432406
36. Tordai H Nagy A Farkas K Banyi L Patthy L Modules, multidomain proteins and organismic complexity FEBS J 2005 272 5064-5078 16176277
37. Aravind L Iyer LM Koonin EV Comparative genomics and structural biology of the molecular innovations of eukaryotes Curr Op in Struct Biol 2006 16 409-419 16679012
38. Jiménez JL Smith GR Contreras-Moreira B Sgouros JG Meunier FA Bates PA Schiavo G Functional Recycling of C2 domains Throughout Evolution: A Comparative Study of Synaptotagmin, Protein Kinase C and Phospholipid C by Sequence, Structural and Modelling Approaches J Mol Biol 2003 333 621-639 14556749
39. Roy SW Gilbert W The evolution of spliceosomal introns: Patterns, puzzles and progress Nat Rev Genet 2006 7 211-221 16485020
40. Koonin EV Senkevich TG Dolja VV The ancient Virus World and evolution of cells Biol Direct 2006 1 29 1594570 16984643
41. Wray G The evolutionary significance of cis-regulatory mutations Nat Rev Genet 2007 8 206-216 17304246
42. Mattick JS A new paradigm for developmental biology J Exp Biol 2007 210 1526-1547 17449818
43. Rodríguez-Trelles F Tarrío R Ayala FJ Origins and Evolution of Spliceosomal Introns Annu Rev Genet 2006 40 47-76 17094737
44. Nishiyama T Fujita T Shin-I T Seki M Nishide H Uchiyama I Kamiya A Carninci P Hayashizaki Y Shinozaki K Kohara Y Hasebe M Comparative genomics of Physcomitrella patens gametophytic transcriptome and Arabidopsis thaliana: Implications for land plant evolution Proc Natl Acad Sci USA 2003 100 8007-8012 164703 12808149