Variation in mitochondrial genome primary sequence among whole-genomesequenced strains of Neurospora crassa

IMA Fungus

Volumn 3, Issue 1, 2012, Pages 93-98

  McCluskey, Kevin ^a  

^a UNIVERSITY OF MISSOURI KANSAS CITY   (United States)

Author keywords

Classical mutant; Indel; Organelle genome; Sequence polymorphism; SNP

Indexed keywords

EID: 84983172362     PISSN: 22106340     EISSN: 22106359     Source Type: Journal    
DOI: 10.5598/imafungus.2012.03.01.10     Document Type: Article

References (46)

1. Agsteribbe E, Hartog M, de Vries H (1989) Duplication of the tRNA(MMet) and tRNA(Cys) genes and of fragments of a gene encoding a subunit of the NADH dehydrogenase complex in Neurospora crassa mitochondrial DNA. Current Genetics 15: 57-62
2. Atwood KC, Mukai F (1954) Survival and mutation in Neurospora exposed at nuclear detonations. American Naturalist 88: 295-314
3. Basse CW (2010) Mitochondrial inheritance in fungi. Current Opinion in Microbiology 13: 712-719
4. Borkovich KA, Alex LA, Yarden O, Freitag M, Turner GE, Read ND, Seiler S, Bell-Pedersen D, Paietta J, Plesofsky N, Plamann M, Goodrich-Tanrikulu M, Schulte U, Mannhaupt G, Nargang FE, Radford A, Selitrennikoff C, Galagan JE, Dunlap JC, Loros JJ, Catcheside D, Inoue H, Aramayo R, Polymenis M, Selker EU, Sachs MS, Marzluf GA, Paulsen I, Davis R, Ebbole DJ, Zelter A, Kalkman ER, O'Rourke R, Bowring F, Yeadon J, Ishii C, Suzuki K, Sakai W, Pratt R (2004) Lessons from the genome sequence of Neurospora crassa: tracing the path from genomic blueprint to multicellular organism. Microbiology, Molecular Biology Reviews 68: 1-108
5. Bowman BJ, Draskovic M, Freitag M, Bowman EJ (2009) Structure and distribution of organelles and cellular location of calcium transporters in Neurospora crassa. Eukaryotic Cell 8: 1845-1855
6. Bullerwell CE, Lang BF (2005) Fungal evolution: the case of the vanishing mitochondrion. Current Opinion in Microbiology 8: 362-369
7. Chen CH, Ringelberg CS, Gross RH, Dunlap JC, Loros JJ (2009a) Genome-wide analysis of light-inducible responses reveals hierarchical light signalling in Neurospora. EMBO Journal 28: 1029-1042
8. Chen K, Wallis JW, McLellan MD, Larson DE, Kalicki JM, Pohl CS, McGrath SD, Wendl MC, Zhang Q, Locke DP, Shi X, Fulton RS, Ley TJ, Wilson RK, Ding L, Mardis ER (2009b) BreakDancer: an algorithm for high-resolution mapping of genomic structural variation. Nature Methods 6: 677-681
9. Collins RA, Lambowitz AM (1983) Structural variations and optional introns in the mitochondrial DNAs of Neurospora strains isolated from nature. Plasmid 9: 53-70
10. Collins RA, Saville BJ (1990) Independent transfer of mitochondrial chromosomes and plasmids during unstable vegetative fusion in Neurospora. Nature 345: 177-179
11. Court DA, Griffiths AJ, Kraus SR, Russell PJ, Bertrand H (1991) A new senescence-inducing mitochondrial linear plasmid in fieldisolated Neurospora crassa strains from India. Current Genetics 19: 129-137
12. D'Souza AD, Sultana S, Maheshwari R (2005) Characterization and prevalence of a circular mitochondrial plasmid in senescenceprone isolates of Neurospora intermedia. Current Genetics 47: 182-193
13. Damiano M, Galvan L, Deglon N, Brouillet E (2010) Mitochondria in Huntington's disease. Biochimica et Biophysica Acta 1802: 52-61
14. de Vries H, Alzner-DeWeerd B, Breitenberger CA, Chang DD, de Jonge JC, RajBhandary UL (1986) The E35 stopper mutant of Neurospora crassa: precise localization of deletion endpoints in mitochondrial DNA and evidence that the deleted DNA codes for a subunit of NADH dehydrogenase. EMBO Journal 5: 779-785
15. Galtier N, Nabholz B, Glemin S, Hurst GD (2009) Mitochondrial DNA as a marker of molecular diversity: a reappraisal. Molecular Ecology 18: 4541-4550
16. Garnjobst L, Tatum EL (1967) A survey of new morphological mutants in Neurospora crassa. Genetics 57: 579-604
17. Garriga G, Lambowitz AM (1983) RNA splicing in Neurospora mitochondria. The large rRNA intron contains a noncoded, 5'-terminal guanosine residue. Journal of Biological Chemistry 258: 14745-14748
18. Garriga G, Lambowitz AM, Inoue T, Cech TR (1986) Mechanism of recognition of the 5' splice site in self-splicing group I introns. Nature 322: 86-89
19. Gilkerson RW, Schon EA, Hernandez E, Davidson MM (2008) Mitochondrial nucleoids maintain genetic autonomy but allow for functional complementation. Journal of Cell Biology 181: 1117-1128
20. Gray MW, Burger G, Lang BF (1999) Mitochondrial evolution. Science 283: 1476-1481
21. Griffiths AJF (1996) Mitochondrial Inheritance in filamentous fungi. Journal of Genetics 75: 403-414
22. Horowitz NH, Fling M, Macleod H, Sueoka N (1961) A genetic study of two new structural forms of tyrosinase in Neurospora. Genetics 46: 1015-1024
23. Howe HB jr, Benson EW (1974) A perithecial color mutant of Neurospora crassa. Molecular and General Genetics 131: 79-83
24. James TY, Kauff F, Schoch CL, Matheny PB, Hofstetter V, Cox CJ, Celio G, Gueidan C, Fraker E, Miadlikowska J, Lumbsch HT, Rauhut A, Reeb V, Arnold AE, Amtoft A, Stajich JE, Hosaka K, Sung GH, Johnson D, O'Rourke B, Crockett M, Binder M, Curtis JM, Slot JC, Wang Z, Wilson AW, Schussler A, Longcore JE, O'Donnell K, Mozley-Standridge S, Porter D, Letcher PM, Powell MJ, Taylor JW, White MM, Griffith GW, Davies DR, Humber RA, Morton JB, Sugiyama J, Rossman AY, Rogers JD, Pfister DH, Hewitt D, Hansen K, Hambleton S, Shoemaker RA, Kohlmeyer J, Volkmann-Kohlmeyer B, Spotts RA, Serdani M, Crous PW, Hughes KW, Matsuura K, Langer E, Langer G, Untereiner WA, Lucking R, Budel B, Geiser DM, Aptroot A, Diederich P, Schmitt I, Schultz M, Yahr R, Hibbett DS, Lutzoni F, McLaughlin DJ, Spatafora JW, Vilgalys R (2006) Reconstructing the early evolution of Fungi using a six-gene phylogeny. Nature 443: 818-822
25. Keeping A, Deabreu D, Dibernardo M, Collins RA (2011) Gel-based mass spectrometric and computational approaches to the mitochondrial proteome of Neurospora. Fungal Genetics and Biology 48: 526-536
26. Keeping AJ, Collins RA (2011) Evidence for the phenotypic neutrality of the Neurospora Varkud (V) and Varkud satellite (VS) plasmids. Fungal Genetics and Biology 48: 741-746
27. Li H, Ruan J, Durbin R (2008) Mapping short DNA sequencing reads and calling variants using mapping quality scores. Genome Research 18: 1851-1858
28. Luck DJ (1963) Genesis of mitochondria in Neurospora crassa. Proceedings of the National Academy of Sciences, USA 49: 233-240
29. Mannella CA, Pittenger TH, Lambowitz AM (1979) Transmission of mitochondrial deoxyribonucleic acid in Neurospora crassa sexual crosses. Journal of Bacteriology 137: 1449-1451
30. Martin F, Cullen D, Hibbett D, Pisabarro A, Spatafora JW, Baker SE, Grigoriev IV (2011) Sequencing the fungal tree of life. New Phytologist 190: 818-821
31. McCluskey K, Wiest A, Grigoriev IV, Lipzen A, Martin J, Schackwitz W, Baker SE (2011) Rediscovery by whole genome sequencing: classical mutations and genome polymorphisms in Neurospora crassa. G3, Genes, Genomes, Genetics 1: 303-316
32. Mitchell MB, Mitchell HK (1952) A Case of "Maternal" Inheritance in Neurospora crassa. Proceedings of the National Academy of Sciences, USA 38: 442-449
33. Moore WS (1995) Inferring phylogenies from mtDNA Variation: mitochondrial-gene trees versus nuclear-gene trees. Evolution 49: 718-726
34. Mylyk OM, Threlkeld SF (1974) A genetic study of female sterility in Neurospora crassa. Genetics Research 24: 91-102
35. Nakamura K, Egashira T (1961) Genetically mixed perithecia in Neurospora. Nature 190: 1129-1130
36. Paquin B, Laforest MJ, Forget L, Roewer I, Wang Z, Longcore J, Lang BF (1997) The fungal mitochondrial genome project: evolution of fungal mitochondrial genomes and their gene expression. Current Genetics 31:380-395
37. Perkins DD (1959) New markers and multiple point linkage data in Neurospora. Genetics 44: 1185-1208
38. Perkins DD (1962a) Preservation of Neurospora stock cultures with anhydrous silica gel. Canadian Journal of Microbiology 8: 591-594
39. Perkins DD, Ishitani C (1959) Linkage data for Group III markers in Neurospora. Genetics 44: 1209-1213
40. Perkins DD, Glassey M, Bloom BA (1962) New data on markers and rearrangements in Neurospora. Canadian Journal of Genetics and Cytology 4: 187-205
41. Springer ML, Yanofsky C (1989) A morphological and genetic analysis of conidiophore development in Neurospora crassa. Genes and Development 3: 559-571
42. Sultana R, Butterfield DA (2009) Oxidatively modified, mitochondriarelevant brain proteins in subjects with Alzheimer disease and mild cognitive impairment. Journal of Bioenergetics and Biomembranes 41: 441-446
43. Tan ST, Ho CC (1970) A gene controlling the early development of protoperithecium in Neurospora crassa. Molecular and General Genetics 107: 158-161
44. Torriani SF, Goodwin SB, Kema GH, Pangilinan JL, McDonald BA (2008) Intraspecific comparison and annotation of two complete mitochondrial genome sequences from the plant pathogenic fungus Mycosphaerella graminicola. Fungal Genetics and Biology 45: 628-637
45. Turner BC, Perkins DD (1979) Spore killer, a chromosomal factor in Neurospora that kills meiotic products not containing it. Genetics 93: 587-606
46. Weijer J, Vigfusson NV (1972) Sexuality in Neurospora crassa. I. Mutations to male sterility. Genetics Research 19: 191-204