Conventional and new concepts of species and genetic mechanisms for the origin of species

Proceedings of the Indian National Science Academy

Volumn 73, Issue 2, 2007, Pages 111-120

  Kumar, Sushil ^a  

^a JAWAHARLAL NEHRU UNIVERSITY   (India)

Author keywords

Genetical species concept; New species concept; Population divergence mechanisms; Species concepts

Indexed keywords

ECOLOGY; PIGMENTS; PLANTS (BOTANY);

(E ,3E) PROCESS; BIOLOGICAL RESEARCH; DIVERSE SPECIES; EVOLUTIONARY BIOLOGY; GENE POOLS; GENETIC DIVERGENCES; GENETIC MECHANISMS; GENOMICS; HETEROLOGOUS GENES; HOMOLOGOUS RECOMBINATION (HR); LIVING ORGANISMS; NEW SPECIES;

BIOLOGY;

EID: 45449095743     PISSN: 03700046     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Review

References (97)

1. Linnaeus C Species Plantarum. Laurentii Salvii, Stockholm (1753)
2. Linnaeus C System a Naturae Laurentii Salvii, Stockholm (1758)
3. Darwin C On the Origin of Species by Means of Natural Selection. John Murray, London (1859)
4. Darwin CR The different Forms of Flowers on Plants of the Same Species. John Murray, London (1877)
5. Mendel G Verhandlungen des Naturforschenden Vereines in Brunn 4 (1866) 3-47
6. Fisher RA The General Theory of Natural Selection Clarendon, Oxford (1930)
7. Wright S In The New Systematics Ed: Huxley J, Oxford Univ Press, London (1940) pp161-183
8. Wright S Evolution in Mendelian Populations. Genetics 16 (1931) 97-159
9. Haldane JBS The Causes of Evolution Longmans Green & Co, London (1932)
10. Dobzhansky T Genetics of The Origin of Species Columbia Univ Press, New York (1937)
11. Dobzhansky T Speciation as a stage in evolutionary divergence Am Nat 94 (1950) 401-418
12. Stebbins GL Variation and Evolution in Plants Columbia Uni Press, New York (1950)
13. Stebbins GL Chromosomal Evolution in Higher Plants. Addison-Wesley Publishing, Reading, Massachusettes (1971)
14. Mayr E Systematics and Origin of Species Columbia Univ. Press, New York (1942)
15. Mayr E In: Evolution as a Process. Eds Huxley J, Hardy AC, Ford EB, Allan and Unwin, London (1954) pp 157-180
16. Mayr E Population, Species and Evolution; On Abridgement of Animal Species and Evolution Harward Univ Press, Cambridge, Massachusetts (1970)
17. Mallet J (1995) A species defination for the modem synthesis. Trends Ecol Evol 10 (1995) 294-297
18. Coyne JA and HA Orr Evolutionary genetics of speciation Philos Trans R Soc Lond B Biol Sci 353 (1998) 287-305
19. Dettman JR, DJ Jacobsen, E Turner, A Pringle, and JW Taylor Reproductive isolation and phylogenetic divergence in Neurospora. Comparing methods of species recognition in a model eukaryote Int J Org Evol 57 (2003) 2721-2741
20. Liti G, DBH Barton and EJ Louis Sequence diversity, reproductive isolation and species concepts in Saccharomyces Genetics 174 (2006) 839-850
21. Malmgren BA, WA Berggren and GP Lohmann Species formation through punctuated gradualism in planktonic foraminifera Science 225 (1984) 317-319
22. Taylor JW, DJ Jacobson, S Kroken, T Kasuga, DM Geiser, DS Hibbett and MC Fisher Phylogenetic species recognition and species concepts in fungi Fungal Genet Biol 31 (2000) 21-32
23. Colosimo PF, KE Hosemann, S Balabhadra, G Villarreal Jr, M Dickson, J Grimwood, J Schmutz, RM Myers, D Schluter and DM Kingsley. Widspread parallel evolution in sticklebacks by repeated fixation of ectodysplasin alleles Science 307 (2005) 1928-1933
24. Zhaxybayeva O, JP Gogarten, RL Charlelebois, WF Doolittle and RT Papke Phylogenetic analysis of cyanobacterial genome: quantification of horizontal gene transfer events Genome Res 16 (2006) 1099-1108
25. Ochman H, E Lerat and V Daubin Examining bacterial species under the specter of gene transfer and exchange Proc Nat Acad Sci USA 102 (2005) (Suppl: 1) 6595-6599
26. Hambly E and CA Suttle The viriosphere, diversity and genetic exchange within phage communities Curr Opin Microbiol 8 (2005) 444-450
27. Paul JH and MB Sullivan Marine phage genomics: what have we learned? Curr Opin Biotechnol 16 (2005) 299-307
28. Li KS, Y Guan, J Wangl, G J D Smith, KM Xu, L Duan, A P Rahardjo, P Puthavathana, C Buranathai, TD Nguyen, ATS Estoepangestie, A Chaisingh, P Auewarakul, HT Long, NTH Hanh, RJ Webby, LLM Poon, H Chen, KF Shortridge, KY Yuen, RG Webster and JSM Peiris Genesis of a highly pathogenic and potentially pandemic H5N1 influenza-virus in eastern Asia. Nature 430 (2004) 209-213
29. Smith GJD, XH Fan, J Wang, KS Li, K Oin, JX Zhang, D Vijaykrishna, CL. Cheung, K Huang, JM Rayner, JSM Peiris, H Chen, RG Webster and Y Guan Emergence and predominance of an H5N1 influenza variant in China. Proc Natl Acad Sci USA 103 (2006) 16936-16941.
30. Lawrence JG Gene transfer in bacteria: speciation without species. Theor Popul Biol 61 (2002) 449-460
31. Lawrence JG and H Hendrickson Genome evolution in bacteria: order beneath chaos Curr Opin Microbiol 8 (2005) 572-578
32. Boucher Y, CJ Boudream, CL Norba, RJ Casa and WF Dolittle Lateral gene transfer and the origin of prokaryotic groups Annu Rev Genet 37 (2003) 283-328
33. Heinemann JA and GF Sprague Jr Bacterial conjugative plasmids mobilize DNA transfer between bacteria and yeast Nature 340 (1989) 205-209
34. Kolling GL and KR Matthewsk Export of virulence genes and Shiga toxin by membrane vesicles in Escherichia coli 0157:H7 Appl Environ Microbiol 65 (1999) 1843-1848
35. Lerat E, V Daubin, H Ochman and MA Moran Evolutionary origins of genomic repertoires in bacteria. PLOS Biol 3 (2005) 807-814
36. Narra HP and H Ochman Of what use is sex to bacteria? Curr Biol 16 (2006) R705-R710
37. Belko RG, TJ Harlow and MA Ragan Highways of gene sharing in prokaryotes Proc Natl Acad Sci USA 102 (2005) 14332-14337
38. Frigaard N, A Martinez, T Mincer and E De Long Proteorhodopsin lateral gene transfer between marine planktonic bacteria and archaea Nature 439 (2006) 847-850
39. Vetsigian K, C Woese and N Goldenfeld Collective evolution and the genetic code Proc Natl Acad Sci USA 103 (2006) 10696-10701
40. Lawrence JG and H Ochman Reconciling the many faces of lateral gene transfer Trends Microbiol 10 (2000) 1-4
41. Sitkiewicz I, MJ Nagiec, P Sumby, SD Butler, C Cywes-Bentley and JM Musser Emergence of a bacterial clone with enhanced virulence by acquisition of a phage encoding a secreted phospholipase A2 Proc Natl Acad Sci USA 103 (2006) 16009-16014
42. Moran NA Symbiosis Curr Biol 16 (2006) R866-R871
43. Valiente-Banuet A, AV Rumebe, M Verdu. and RM Callaway Modern quaternary plant lineages promote diversity through facilitation of ancient tertiary lineages Proc Nad Acad Sci USA 103 (2006) 16812-16817
44. Gompel N, B Prudhomme, PJ Wittkopp, VA Kassner and SB Carroll Chance caught on the wing: cis-regulatory evolution and the origin of pigment patterns in Drosophila. Nature 433 (2005) 481-487
45. Dobzhansky T Studies on hybrid sterility. II. localization of sterility factors in Drosophila pseudoobscura hybrids Genetics 21 (1936)113-135
46. Muller HJ In: The New Systematics (Ed. Huxley J), Clarendon, Oxford (1940) pp185-268
47. Coyne JA and HA Off Speciation. Sinauer Associates, Sunderland, Massuchusettes (2004)
48. Ohno S Evolution by Gene Duplication, Springer Verlag, Berlin (1970)
49. Orr AH The genetic basis of reproductive isolation: Insights from Drosophila. Proc Natl Acad Sci USA 102 (2005) 6522-6526
50. Ting C-T, S-C Tsaur, M-L Wu and C-I Wu A rapidly evolving homeobox at the site of a hybrid sterility gene. Science 282 (1998) 1501-1504
51. Wu C-I and C-T Ting Genes and speciation Nat Rev Genet 5 (2004) 114-122
52. Presgraves DC, L Balgopalan, SM Abmayr and HA Orr Adaptive evolution drives divergence of a hybrid inviability gene between two species of Drosophila. Nature 423 (2003) 715-719
53. Malitschek B, D Fornzler and M Schartl Melanoma formation in Xophophorus: a model system for the role of receptor tyrosine kinases in tumorigenesis Bioassay 17: 1017-1023.
54. Brideau NJ, HA Flores, J Wang, S Maheshwari, X Wang and DA Barbash Two Dobzhansky-Muller genes interact to cause hybrid lethality in Drosophila. Science 314 (2006) 1292-1295
55. Barluenga M, KN Stolking, W Salzburger, M Muschiek and A Meyer Sympatric speciation in Nicaranguan crater lobe cichlid fish Nature 439 (2005) 719-723
56. Savolainan V, M-C Anstelt, C Lear, I Hutton, JJ Clarkson, MV Norup, MP Powel, D Springate, Salanin N and WJ Baker Sympatric speciation in palms on an oceanic island Nature 439 (2006) 847-850
57. Malausa T, M-T Bethenod, A Bontemps, G Bourguet, J-M Cornuet and S Ponsard Assortative mating in sympatric host races of the European cornborer Science 308 (2005) 258-260
58. Mendelson TC and KL Shaw Rapid speciation in an arthropod Nature 433 (2005) 375-376
59. Bearhop S, W Fiedler, RW Furness, SC Voticr, S Waldron, J Newton, GJ Bowen, P Berthold, K Farnsworth Assortative mating as a mechanism for rapid evolution of a migratory divide Science 310 (2005) 502-504
60. Rayssiguier C, DC Thaler and M Radman The barriers to recombination between Escherichia coli and Salmonella typhimurium is disrupted in mismatch repair mutants Nature 342 (1989) 396-401
61. Grieg D, RM Borts, EJ Louis and M Travisano Epistasis and hybrid sterility in Saccharomyces. Proc R Soc Lond B Biol Sci 269 (2002) 1167-1171
62. Tao Y, DJ Hard and CC Laurie Sex-ratio segregation distortion associated with the reproductive isolation in Drosophila. Proc Natl Acad Sci USA 98 (2001) 13183-13188
63. Orr HA and Irvings Segregation distortion in hybrids between the Bogota and USA subspecies of Drosophila pseudoobscura. Genetics 169 (2005) 671-682
64. Ayala FJ and M Coluzzi Chromosomes speciation: Humans, Drosophila and mosquitoes Proc Natl Acad Sci USA 102 (2005) 6535-6542
65. Coluzzi M, A Sabatini, A Della Torre, MA Di Deco and V Tetrarca A polytene chromosome analysis of the Anopheles gambiae species complex Science 298 (2002) 1415-1418
66. Lukhtanov V, NP Kandul, JB Potkin, AV Dautchenko, D Haig. and NE Pierce Reinforcement of pre-zygotic isolation and karyotypic evolution in Agrodiaetus butterflies Nature 436 (2006) 355-389
67. a Blanc G and KH Wolfe Functional divergence of duplicated genes formed by polyploidy during Arabidopsis evolution Plant Cell 16 (2004) 1679-1691
68. Blanc G, A Barakat, R Guyot, R Cookea and M Deeseny Extensive duplication and reshuffling in Arabidopsis genome Plant Cell 12 (2002) 1093-1101
69. a Adams KL and JF Wendel Polyploidy and genome evolutions in plants Curr Opin Plant Biol 8 (2005) 135-141
70. Madlung A, AP Tyagi, B Watson, H Jiang, T Kagochi, RW Doerge, R Martienssen and L Comai Genomic changes in synthetic Arabidopsis polyploids Plant J 41 (2005) 221-230
71. Briggs GC, KS Osmont, C Shindo, R Sibout and CS Hardtke Unequal genetic redundance in Arabidopsis- a neglected phenomenon Trends Plant Sci 11 (2006) 492-497
72. Casneuf T, S De Bodt, J Raes, S Maere and Y Van de Peer Nonrandom divergence of gene expression following gene and genome duplication in the flowering plant Arabidopsis thaliana. Genome Biol 7 (2006) R13 (Epub 2006 Feb 20)
73. Freeling M and BC Thomas Gene balanced duplications, like tetraploidy, provide predictable drive to increase morphological complexity Genome Res (2006) 805-814
74. Schranz ME, MA Lysak and T Mitchell-Olds The ABCs of comparative genomes in Brassicaceae: building blocks of crucifer genomes Trends Plant Sci 11 (2006) 535-542.
75. Lupski JR and P Stankiewicz Genomic Disorders: the Genomic Basis of Disease. Human Press, Tolawa, New Jersey (2006)
76. Redon R, S Ishikawa, KR Fitch, L Feuk, GH Perry, TD Andrews, H Fiegler MH Shapero, AR Carson, W Chen, EK Cho, S Dallaire, JL Freeman, JR González, M Gratacòs, J Huang, D Kalaitzopoulos, D Komura, JR MacDonald, CR Marshall, R Mei, L Montgomery, K Nishimura, K Okamura, F Shen, MJ Somerville, J Tchinda, A Valsesia, C Woodwark, FYang, J Zhang, T Zerjal, J Zhang, LArmengol, DF Conrad, X Estivill, C Tyler-Smith, NP Carter, H Aburatani, C Lee, KW Jones, SW Scherer and ME Hurles Global variation in copy number in the human genome. Nature 444 (2006) 444-454
77. Dolgin ES and B Charlesworth The fate of transposable elements in asexual populations. Genetics 174 (2006) 817-827
78. Jackson RC Evolution and systematic significance of polyploidy Annu Rev Ecol Syst 7 (1996) 209-234
79. Lagererantz U Comparative mapping between Arabidopsis thaliana and B. nigra indicates that Brassica genomes have evolved through extensive genome replication accompanied by chromosomal fusions and frequent rearrangements Genetics 150 (1998) 1217-1228
80. Joseffson C, B Dilkes and L Comai Parent dependent loss of gene silencing during interspecies hybridization Curr Biol 16 (2006) 1322-1328
81. Noor M A F and A S Chang Evolutionary genetics: jumping into a new species Curr Biol 16 (2006) R890-R892
82. Ungerer MC, SC Strakosh and Y Zhen Genome expansion in three hybrid sunflower species is associated with retrotransposons proliferation Curr Biol 16 (2006) R872-R873
83. Paux E, D Roger, E Badaeva, G Gay, M Bernard, P Sourdille and C Fevillet Characterizing the composition and evolution of homeologous genomes in hexaploid wheat through BAC-end sequencing on chromosome 2B Plant J 48 (2006) 463-474
84. Mallet J Hybrid speciation. Nature 446 (2007) 279-283
85. Song K, P Lu, K Tang and TC Osborn Rapid genome change in synthetic polyploids of Brassica and its implications for polyploid evolution Proc Natl Acad Sci USA 92 (1995) 7719-7723
86. Clarkson JJ, S Knapp, VF Garcia, RG Olmstead, AR Leitch and M Chase Phylogenetic relationships in Nicotiana (Solanaceae) inferred from multiple plastid DNA region Mol Phylogenet Evol 33 (2004) 75-90
87. Pires JC, C Pires, J Zhao, ME Schranz, EJ Lon, PA Quliada, LN Lukens and TC Osborn Flowering time divergence and genomic rearrangements in resynthesized Brassica polyploids (Brassicaceae) Biol J Linn Soc 82 (2004) 675-688
88. Timms L, R Jimenez, M Chase, D Lavelle, L McHale, A Kozik, Z Lai, A Heesacker, S Knapp, L Rieseberg, R Michelmore and R Kesseli Analysis of synteny between Arabidopsis thaliana and species in the Asteraceae reveal a complex network of small syntenic segments and major chromosomal rearrangements Genetics 73 (2006) 2227-2236
89. Ziolkowski PA, M Kaezmarck, D Babula and J Sadowski Genome evolution in Arabidopsis/Brassica: conservation and divergence of ancient rearranged segments and their breakpoints Plant J 47 (2006) 63-74
90. Pearse IS, T Krugel, and IT Baldwin Innovation in anti-herbivore defense systems during neopolyploidy- the functional consequences of instantaneous speciation Plant J 47 (2006) 196-210
91. Tyler B, MS Tripathy, X Zhang, P Dehal, RHY Jiang, A Aerts, FD Arredondo, L Baxter, D Bensasson, JL Beynon, J Chapman, CMB Damasceno, AE Dorrance, D Don, AW Dickerman, IL Dubchak, M Garbelotto, M Gijzen, SG Gordon, F Govers, NJ Grunwald, W Huang, KL Ivors, RW Jones, S Kamoun, K Krampis, KH Lamour, M-K Lee, W H McDonald, M Medina, HJG Meijer, EK Nordberg, DJ Maclean, MD Ospina-Giraldo, PF Morris, V Phuntumart, NH Putnam, S Rash, JKC Rose, Y Sakibama, AA. Salamov, A Savidor, CF Scheuring, BM Smith, BWS Sobral, A Terry, TA Torto-Alalibo, J Win, Z Xu, H Zhang, IV Grigoriev, DS Rokhsar and JL Boore Phytopthera genome sequences uncover evolutionary origins and mechanisms of pathogenesis Science 313 (2006) 1261-1265
92. Buchanan-Wollaston V, JE Passiatore and F Canon The mob and oriT mobilization functions of a bacterial plasmid promote its transfer to plants Nature 328 (1987) 170-175
93. Waters VL Conjugation between bacterial and mammalian cells Nat Genet 29 (2001) 375-376
94. Martin W, T Rujan, E Richly, A Hansen, S Cornelsen, T Lins, D Leister, B Stoebe, M Hasegawa and D Penny Evolutionary analysis of Arabidopsis, cyanobacterial, and chloroplast genomes reveals plastid phylogeny and thousands of cyanobacterial genes in the nucleus Proc Natl Acad Sci USA 99 (2002) 12246-12251
95. Gogarten JP and JP Townsend Horizontal gene transfer innovation and evolution Nat Rev Microbiol 3 (2005) 679-687
96. Richards TA, JB Dacks, JM Jenkinson, CR Thornton and NJ Talbot Evolution of filamentous plant pathogens: gene exchange across eukaryotic kingdoms Curr Biol 16 (2006) 1857-1864
97. Andersson JD Convergent evolution: gene sharing by eukaryotic plant pathogens Curr Biol 16 (2006) R804-R806