Abstract
Asian common wild rice (Oryza rufipogon) is a polycarpic perennial plant with a mixed inbreeder/outbreeder strategy. Seeds and clones are both reproductive components of the population. However, when collected in the flowering stage, the two differ substantially as to whether they have experienced natural selection directly or not. This study is aimed at evaluating mechanisms for the survival of a population by comparing genetic structure among subpopulations that are classified in terms of: (1) reproductive systems (clones or seeds); and also (2) location (fringe or inside). First, the genotypes determined at seven SSR (Simple Sequence Repeat) loci showed that parameters of observed heterozygosity (HO) and outcrossing rate (t) were clearly higher in clones (HO = 0.609, t = 82.4%) than in seeds (HO = 0.346, t = 35.5%), although the two had approximately the same values for the number of alleles (A) and expected heterozygosity (HE)(A = 4.43 in both clones and seeds, HE = 0.709, 0.692 in clones and seeds, respectively). This result indicates that the individuals showing ’heterosis’, with high numbers of heterozygous loci and outcrossing rates, are more likely to survive in the natural habitat. Secondly, parameters of observed heterozygosity and outcrossing rates were lower for seeds from the fringe area (HO = 0.238, t = 24.6%) compared to seeds from the inside area (HO = 0.443, t = 60.7%), although values were similar in clones of both the fringe and inside areas. This result suggests that the ’edge effect’ might be due mainly to the restriction of wind strength in fringe area of the forested swamp.
Similar content being viewed by others
References
H. Akagi Y. Yokozeki A. Inagaki T. Fujimura (1996) ArticleTitleMicrosatellite DNA for rice chromosomes Theor. Appl. Genet. 93 1071–1077 Occurrence Handle1:CAS:528:DyaK2sXpvFKhsA%3D%3D
M. Akimoto Y. Shimamoto H. Morishima (1998) ArticleTitlePopulation genetic structure of wild rice Oryza glumaepatula distributed in the Amazon flood area influenced by its life- history traits Mol. Ecol. 7 1371–1381
M. Akimoto Y. Shimamoto H. Morishima (1999) ArticleTitleThe extinction of genetic resources of Asian wild rice, Oryza rufipogon Griff.: a case study in Thailand Genet. Resour. Crop Evol. 46 419–425
P. Barbier (1989a) ArticleTitleGenetic variation and ecotypic differentiation in the wild rice species Oryza rufipogon. I. Population differentiation in life-history traits and isozymic loci Jpn. J. Genet. 64 259–271
P. Barbier (1989b) ArticleTitleGenetic variation and ecotypic differentiation in the wild rice species Oryza rufipogon. II. Influence of the mating system and life-history traits on the genetic structure of populations Jpn. J. Genet. 64 259–271
H. Berg P. Redbo-Torstensson (1999) ArticleTitleOffspring performance in three cleistogamous Viola species Plant Ecol. 145 49–58
G. Booy R.J.J. Hendriks M.J.M. Smulders J.M. Van Groenendael B. Vosman (2000) ArticleTitleGenetic diversity and the survival of populations Plant Biol. 2 379–395
R.O. Bierregaard T.E. Lovejoy V. Kapos A.A. dos Santos R.W. Hutchings (1992) ArticleTitleThe biological dynamics of tropical rainforest fragments BioScience 42 859–866
T.M. Caro M.K. Laurenson (1994) ArticleTitleEcological and genetic factors in conservation: a cautionary tale Science 263 485–486 Occurrence Handle8290956 Occurrence Handle1:STN:280:DyaK2c7itVCjtA%3D%3D
T.T. Chang (1984) ArticleTitleConservation of rice genetic resources: luxury or necessity? Science 224 251–256 Occurrence Handle17734902
X. Chen S. Temnykh Y. Xu Y.G. Cho S.R. McCouch (1997) ArticleTitleDevelopment of a microsatellite framework map providing genome-wide coverage in rice (Oryza sativa L.) Theor. Appl. Genet. 95 553–567 Occurrence Handle1:CAS:528:DyaK2sXmvFGgtrk%3D
S. Chitrakon (1994) ArticleTitleGenetic erosion of rice in Thailand Tropics 3 223–225
D.W. Coltman W.D. Bowen J.M. Wright (1998) ArticleTitleBirth weight and neonatal survival of harbor seal pups are positively correlated with genetic variation measured by micro- satellites Proc. R. Soc. Lond. B 265 803–809 Occurrence Handle1:STN:280:DyaK1c3ptFGjug%3D%3D
T.N. Coulson J.M. Pemberton S.D. Albon M. Beaumont T.C. Marshall J. Slate F.E. Guinness T.H. Clutton-Brock (1998) ArticleTitleMicrosatellites reveal heterosis in red deer Proc. R. Soc. Lond. B 265 489–495 Occurrence Handle1:STN:280:DyaK1c3jtFWhtA%3D%3D
C.R. Darwin (1859) On the Origin of Species by Means of Natural Selection or the Preservation of Favoured Races in the Struggle for Life J. Murray London
Endler J.A. 1986. Natural Selection in the Wild. Monographs in Population Biology 21, Princeton University Press, 336 pp
B.K. Epperson E.R. Alvarez-Buylla (1997) ArticleTitleLimited seed dispersal and genetic structure in life stages of Cecropia obtusifolia Evolution 51 275–282
L.Z. Gao S. Ge D.Y. Hong (2000) ArticleTitleLow levels of genetic diversity within populations and high differentiation among populations of a wild rice, Oryza granulata Nees et Arn. ex Watt., from China Int. J. Plant Sci. 161 691–697 Occurrence Handle1:CAS:528:DC%2BD3cXmtVarsLs%3D
S.M. Haig (1998) ArticleTitleMolecular contributions to conservation Ecology 79 413–425
J.L. Hamrick M.J.W. Godt (1989) Allozyme diversity in plant species A.H.D. Brown M.T. Glegg A.L. Kahler B.S. Weir (Eds) Plant Population Genetic Resources Sinauer Sunderland, MA
Y. Kameyama Y. Isagi N. Nakagoshi (2001) ArticleTitlePatterns and levels of gene flow in Rhododendron metternichii var. hondoense revealed by microsatellite analysis Mol. Ecol. 10 205–216 Occurrence Handle11251799 Occurrence Handle1:CAS:528:DC%2BD3MXjs1ejtb8%3D
Y. Kuroda H. Urairong Y.I. Sato (2002) ArticleTitlePopulation genetic structure of wild rice (Oryza rufipogon) in mainland Southeast Asia as revealed by microsatellite polymorphisms Tropics 12 159–170 Occurrence Handle10.3759/tropics.12.159
R. Lande D.W. Schemske (1985) ArticleTitleThe evolution of self- fertilization and inbreeding depression in plants. I. Genetic models Evolution 39 24–40
R. Lande (1988) ArticleTitleGenetics and demography in biological conservation Science 241 1455–1460 Occurrence Handle3420403 Occurrence Handle1:STN:280:DyaL1czjs1yktA%3D%3D
F.T. Ledig P.D. Hodgskiss V. Jacob-Cervantes (2002) ArticleTitleGenetic diversity, mating system, and conservation of a Mexican subalpine relict, Picea mexicana Martinez Conserv Genet. 3 113–122 Occurrence Handle1:CAS:528:DC%2BD38XltFSnsrg%3D
Z.K. Li L.J. Luo H.W. Mei D.L. Wang Q.Y. Shu R. Tabien D.B. Zhong C.S. Ying J.W. Stansel G.S. Khush A.H. Paterson (2001) ArticleTitleOverdominant epistatic loci are the primary genetic basis of inbreeding depression and heterosis in rice. I. Biomass and grain yield Genetics 158 1737–1753 Occurrence Handle11514459 Occurrence Handle1:CAS:528:DC%2BD3MXmvFKgsbg%3D
S.R. McCouch X. Chen O. Panaud S. Temnykh Y. Xu Y.G. Cho N. Huang T. Ishii M. Blair (1997) ArticleTitleMicrosatellite marker development, mapping and applications in rice genetics and breeding Plant Mol. Biol. 35 89–99 Occurrence Handle9291963 Occurrence Handle1:CAS:528:DyaK2sXlvVGjs7w%3D
H. Morishima Y. Sano H.I. Olka (1992) ArticleTitleEvolutionary studies in cultivated rice and its wild relatives Oxf. Surv. Evolut. Biol. 8 135–184
H. Morishima (1994) ArticleTitleObservations at permanent study-site of wild rice in the suburb of Bangkok Tropics 3 227–233
H. Morishima Y. Sano H.I. Oka (1984) ArticleTitleDifferentiation of perennial and annual types due to habitat conditions in the wild rice Oryza perennis Plant Syst. Evol. 144 119–136
H. Morishima P. Barbier (1990) ArticleTitleMating system and genetic structure of natural populations in wild rice Oryza rufipogon Plant Species Biol. 5 31–40
M. Nei (1973) ArticleTitleAnalysis of gene diversity in subdivided populations Proc. Nat. Acad. Sci. USA 70 3321–3323 Occurrence Handle4519626 Occurrence Handle1:STN:280:DyaE2c%2FlsFCrtQ%3D%3D
M. Nei A.K. Roychoudhury (1974) ArticleTitleSampling variance of heterozygosity and genetic distance Genetics 76 379–390 Occurrence Handle4822472 Occurrence Handle1:STN:280:DyaE2c7ktlCiuw%3D%3D
M. Nei (1978) ArticleTitleEstimation of average heterozygosity and genetic distance from a small number of individuals Genetics 89 583–590 Occurrence Handle17248844
M. Nei (1987) Molecular Evolutionary Genetics and Evolution Columbia Univ. Press New York 288
H.I. Oka (1988) Origin of Cultivated Rice Jpn. Scientific Societies Press/Elsevier Tokyo/Amsterdam 254
O. Panaud X. Chen S.R. McCouch (1996) ArticleTitleDevelopment of microsatellite markers and characterization of simple sequence length polymorphism (SSLP) in rice (Oryza sativa L.) Mol. Gen. Genet. 252 597–607 Occurrence Handle8914521 Occurrence Handle1:CAS:528:DyaK28XmvFKgsr0%3D
P.G. Parker A.A. Snow M.D. Schug G.C. Booton P.A. Fuerst (1998) ArticleTitleWhat molecules can tell us about populations: choosing and using a molecular marker Ecology 79 361–382
S.B. Piertney A.D.C. Maccoll P.J. Bacon J.F. Dallas (1998) ArticleTitleLocal genetic structure in red grouse (Lagopus lagopus scoticus): evidence from microsatellite DNA markers Mol. Ecol. 7 1645–1654 Occurrence Handle9859199 Occurrence Handle1:CAS:528:DyaK1MXjtVOhtQ%3D%3D
Primack R.B. 1995. A Primer of Conservation Biology. Sinaur Associates Inc.
K. Ralls J. Ballou A. Templetion (1988) ArticleTitleEstimates of lethal equivalents and the cost of inbreeding in mammals Conserv. Biol. 2 185–193
M. Rossetto R.W. Slade P.R. Baverstock R.J. Henry L.S. Lee (1999) ArticleTitleMicrosatellite variation and assessment of genetic structure in tea tree (Melaleuca alternifolia – Myrtaceae) Mol. Ecol. 8 633–643 Occurrence Handle10327658 Occurrence Handle1:CAS:528:DyaK1MXjtFKnsr4%3D
Y. Sano H. Morishima H.I. Oka (1980) ArticleTitleIntermediate per- ennial-annual populations of Oryza perennis found in Thailand and their evolutionary significance Bot. Mag. Tokyo 93 291–305
Y.I. Sato (1994) ArticleTitleGenetic erosion in the tropics Tropics 3 33–50 Occurrence Handle10.3759/tropics.3.33
Sato Y.I., Ueno K., Shimamoto Y., Sato T., Nakamura I., Shishido R., Ishii T., Chitrakon S., Shiller J., Knyavong K., Palaklang W. and Urairong H. 2001. Ecological–Genetical Survey for Wild and Cultivated Rice in the Tropical Asia. 62 pp. (mimeo)
R. Streiff T. Labbe R. Bacilieri H. Steinkellner J. Glossl A. Kremer (1998) ArticleTitleWithin-population genetic structure in Quercus robur L. and Quercus petraea (Matt.) Liebl. assessed with isozymes and microsatellites Mol. Ecol. 7 317–328
C.W. Stuber (1994) ArticleTitleHeterosis in plant breeding Plant Breed. Rev. 12 227–251
E. Symonides (1979) ArticleTitleThe structure and population dynamics of psammophytes of inland dunes: I. Populations of initial stages Ekol. Pol. 27 3–37
S. Temnykh W.D. Park N. Ayres S. Cartinhour N. Hauck L. Lipovich Y.G. Cho T. Ishii S.R. McCouch (2000) ArticleTitleMapping and genome organization of microsatellite sequences in rice (Oryza sativa L.). Theor Appl. Genet. 100 697–712 Occurrence Handle1:CAS:528:DC%2BD3cXjt1Kjsrw%3D
M. Van der Velde L. Van de Zande R. Bijlsma (2001) ArticleTitleGenetic structure of Polytrichum formosum in relation to the breeding system as revealed by microsatellites J. Evol. Biol. 14 288–295 Occurrence Handle1:CAS:528:DC%2BD3MXjtlKjs7w%3D
D.A. Vaughan T.T. Chang (1992) ArticleTitle In situ conservation of rice genetic resources Econ. Bot. 46 368–383
Vaughan D.A. 1994. The Wild Relatives of Rice; A Genetic Resources Handbook. International Rice Research Institute, pp. 137
B.S. Weir (1990) Genetic Data Analysis: Methods for Discrete Population Genetic Data Sinauer Sunderland, Massachusetts
S. Wright (1965) ArticleTitleThe interpretation of population structure by F- statistics with special regard to systems of mating Evolution 19 395–420
S. Wright (1977) Evolution and the Genetics of Populations, vol. 3, Experimental Results and Evolutionary Deductions University of Chicago Press Chicago
Z.W. Xie Y.Q. Lu S. Ge D.Y. Hong F.Z. Li (2001) ArticleTitleClonality in the wild (Oryza rufipogon Poaceae) and its implications for conservation management Am. J. Bot. 88 1058–1064
Yatsuda T. 1997. Ecological genetic study on wild rice population in the in situ conservation of Prachinburi rice research center in Thailand. MS thesis submitted to Shizuoka Univ., Shizuoka, Japan, 113 pp
A.G. Young A.H.D. Brown F.A. Zich (1999) ArticleTitleGenetic structure of fragmented populations of the endangered Daisy Rutidosis leptorrhynchoides Conserv. Biol. 13 256–265
Author information
Authors and Affiliations
Rights and permissions
About this article
Cite this article
Kuroda, Y., Urairong, H. & Sato, YI. Differential heterosis in a natural population of Asian wild rice (Oryza rufipogon Griff.) due to reproductive strategy and edge effect. Genet Resour Crop Evol 52, 151–160 (2005). https://doi.org/10.1007/s10722-003-4451-z
Received:
Accepted:
Issue Date:
DOI: https://doi.org/10.1007/s10722-003-4451-z