Chloroplast DNA variation in the genus Glycine subgenus Soja

Shoemaker, R. C.; Hatfield, Peggy M.; Palmer, R. G.; Atherly, Alan G.

doi:10.1093/oxfordjournals.jhered.a110161

Cited by 60 publications

(38 citation statements)

References 0 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…In the subgenus Soja, variations of cpDNA have been detected (Shoemaker et al, 1986;Close et al, 1989;Lee et al, 1992Lee et al, , 1994Shimamoto et al, 1992;Hirata et al, 1996;Powell et al, 1996), although they are not so many as those detected in the subgenus Glycine (Doyle et al, 1990a(Doyle et al, , 1990bDoyle, 1991). Shoemaker et al (1986) detected restriction fragment length polymorphisms (RFLPs) by gel electrophoresis of isolated cpDNA following restriction digestion. Close et al (1989) detected RFLPs by DNA gel-blot analyses using mung bean cpDNA clones as probes.…”

Section: Introductionmentioning

confidence: 99%

Sequence variation of chloroplast DNA that involves EcoRI and ClaI restriction site polymorphisms in soybean.

1998

View full text Add to dashboard Cite

Restriction fragment length polymorphisms (RFLPs) of EcoRI-and ClaI-digested chloroplast DNA (cpDNA) within the genus Glycine subgenus Soja were characterized. Two mutations were found to be responsible for the EcoRI and ClaI restriction site polymorphisms, and both were located in a region in which many ribosomal protein genes are clustered. This region is within the large single copy region of cpDNA and is located close to an inverted repeat. The locations of restriction sites of EcoRI and ClaI in the cpDNA region were analyzed by DNA gel-blot analyses and PCR amplification, which were followed by sequencing analyses. The EcoRI site polymorphism was found to have occurred in the intergenic spacer between rps11 and rpl36, while the ClaI site polymorphism was located within the 3' part of the coding region of rps3. The mutations that cause EcoRI and ClaI polymorphisms were both found to be single base substitutions. In addition to these polymorphisms, novel sequence variations in soybean cpDNA were detected near the sites of these mutations. Previously, it was shown that cultivated soybeans could be classified into three groups (I, II, and III) based on their cpDNA RFLPs. A comparison of the cpDNA sequences of soybeans in the present study was consistent with the notion that the cpDNA of group II soybeans is an intermediate between the cpDNAs of groups I and III.

show abstract

Section: Introductionmentioning

confidence: 99%

Sequence variation of chloroplast DNA that involves EcoRI and ClaI restriction site polymorphisms in soybean.

1998

View full text Add to dashboard Cite

show abstract

“…Analyses of restriction fragment length polymorphisms (RFLPs) have been utilized to search for diversity in the subgenus Soja with regard to chloroplast DNA (cpDNA; Close et al, 1989;Shoemaker et al, 1986) and mitochondrial DNA (mtDNA; Sisson et al, 1978;Grabau et al, 1989Hanlon and Grabau, 1995;Moeykens et al, 1995;Tozuka et al, 1998), as well as nuclear DNA (Apuya et al, 1988;Keim et al, 1989;Skorupska et al, 1993). Close et al (1989) defined six soybean plastome groups based on RFLPs of cpDNA.…”

Section: Introductionmentioning

confidence: 99%

Phylogenetic relationships of the mitochondrial genomes in the genus Glycine subgenus Soja.

et al. 1998

View full text Add to dashboard Cite

“…There have been few studies of intraspecific cpDNA polymorphisms. Although examples of intraspecific cpDNA polymorphisms have been reported (7)(8)(9)(10)(11), small sample sizes have been employed or the variants observed have been at low frequency; Consequently, little is known of the extent of intraspecific cpDNA diversity. In this paper we present evidence, from large samples, that lodgepole pine (Pinus contorta Dougl.…”

mentioning

confidence: 99%

Chloroplast DNA polymorphisms in lodgepole and jack pines and their hybrids.

Wagner¹,

Furnier²,

Maroof³

et al. 1987

Proc. Natl. Acad. Sci. U.S.A.

399

203

View full text Add to dashboard Cite

Samples taken from throughout the ranges of distribution of lodgepole pine (Pinus contorta Dougl. ex. Loud.) and jack pine (Pinus banksiana Lamb.) were assayed for Sal I and Sst I chloroplast DNA restriction fragment variation. Although the chloroplast genome is often regarded as highly conserved, at least 2 distinct Sal I and 13 distinct Sst I restriction fragment banding patterns occur in these closely related species. None of the chloroplast DNA restriction fragment banding patterns observed in allopatric lodgepole pine was observed in allopatric populations of jack pine, and vice versa, even though the two species share an extensive zone of sympatry, and gene flow between the species has been reported for nuclear genes. However, several atypical Sst I restriction fragment banding patterns occur only in or near the zone of sympatry. Chloroplasts have been reported to be inherited maternally in the great majority of species studied; however, restriction fragment analyses indicated that chloroplasts are inherited paternally in controlled matings between lodgepole pine (Y) and jack pine (i).The chloroplast genome, which averages about 150 kilobase pairs (kbp) in size, encodes gene products that are involved in photosynthesis (1). It is inherited maternally in the great majority of species that have been studied, but biparental inheritance has been reported in at least 20 species (2, 3). Although studies of chloroplast DNA (cpDNA) have usually been based on one or a few samples per species, they have demonstrated that diversity among species is common and they have been informative phylogenetically (4-6). There have been few studies of intraspecific cpDNA polymorphisms. Although examples of intraspecific cpDNA polymorphisms have been reported (7-11), small sample sizes have been employed or the variants observed have been at low frequency; Consequently, little is known of the extent of intraspecific cpDNA diversity. In this paper we present evidence, from large samples, that lodgepole pine (Pinus contorta Dougl. ex. Loud.) and jack pine (Pinus banksiana Lamb.) differ in their Sal I and Sst I cpDNA phenotypes and that there are a large number of distinct Sst I restriction fragment variants throughout the wide allopatric distributional ranges ofboth species, as well as within a zone of sympatry in which the ranges of the two species overlap. We also present evidence that introgression of Sal I and Sst I variants is rare between the species and that cpDNA is inherited paternally in matings of P. contorta (9) with P. banksiana (d).MATERIALS AND METHODS Plant Materials. In total, 371 individuals were sampled, including 153 individuals of lodgepole pine from 63 populations in the allopatric (nonoverlapping) region, 115 individuals ofjack pine from 68 populations in the allopatric region, and 95 individuals from 16 populations in the zone of sympatry (Fig. 1); all four subspecies of P. contorta were represented in the sample of lodgepole pine. To maximize the number of populations represented, only a single indi...

show abstract

Chloroplast DNA variation in the genus Glycine subgenus Soja

Cited by 60 publications

References 0 publications

Sequence variation of chloroplast DNA that involves EcoRI and ClaI restriction site polymorphisms in soybean.

Sequence variation of chloroplast DNA that involves EcoRI and ClaI restriction site polymorphisms in soybean.

Phylogenetic relationships of the mitochondrial genomes in the genus Glycine subgenus Soja.

Chloroplast DNA polymorphisms in lodgepole and jack pines and their hybrids.

Contact Info

Product

Resources

About