Molecular differentiation of Chenopodium album complex and some related species using ISSR profiles and ITS sequences

Conservation Biology and Molecular Taxonomy, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow 226 001, India.
Gene (Impact Factor: 2.08). 03/2012; 495(1):29-35. DOI: 10.1016/j.gene.2011.12.031
Source: PubMed

ABSTRACT The present study was undertaken to understand the genetic differentiation and relationships in various components of C. album complex, C. giganteum and some related species using inter simple sequence repeats (ISSR) profiles and internal transcribed spacer (ITS) sequences. The relationships based on UPGMA dendrograms have shown the heterogenous nature of C. album complex. The 2x taxa while showing close relation among themselves are sharply segregated from 4x and 6x taxa belonging to C. album and C. giganteum. Among the three cytotypes from North Indian plains the 4x shows greater similarity to 6x than to 2x which is corroborated by the karyotypic studies. Furthermore, the 6x C. album and C. giganteum accessions of American and European origin are clearly segregated from those of Indian origin which may show their separate origin. Other related species show relationships according to their taxonomic position. The present study based on ISSR profiles and ITS sequences has therefore been very useful in explaining the relationships between various components of C. album complex and related species. However, more work needs to be done using different CpDNA loci to define correct species boundary of the taxa under C. album complex from Himalayas and North Indian Plains.

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    • "Single-locus molecular markers have been successfully used as a biosystematic tool, in order to define interspecific limits within species complexes (Crawford and Mort 2004). Among these, the ISSR (inter simple sequence repeat, Zietkiewicz et al. 1994) is very useful for detecting genetic polymorphisms at species level (Gaiero et al. 2011; Amirmoradi et al. 2012; Rana et al. 2012), since it produces a large number of polymorphic fragments that can be interpreted as multiloci genetic profiles (Zietkiewicz et al. 1994). Myrtaceae is one of these plant families where identification problems are very common (Biffin et al. 2010). "
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    ABSTRACT: Myrtaceae is a family with high taxonomic complexity, especially the very rich genera such as Myrcia. For this genus, there is not a complete and recent taxonomic revision, and it has some species complexes that are poorly delimited. One of these complexes includes M. laruotteana, M. selloi, M. lajeana and M. tomentosa. In order to better understand the species boundaries in this complex, we analyzed the genetic variability and structure of multiple populations of these four species using inter simple sequence repeat markers, checking if there is any relationship between genetic, morphological and geographical patterns. The amount of genetic diversity found was similar (H E = 0.215) compared to species with similar biological characteristics. No groupings that were previously tested (morphological, geographical and the ones used in the traditional taxonomy) showed significant genetic structure. The groups suggested by Bayesian analysis showed a higher genetic structure through analyses of molecular variance: 12 % of the variation between populations within groups and 27 % of the variation between groups. The Bayesian analysis and the neighbor-joining dendrogram showed two major groups, the first with all populations of M. tomentosa, and the second containing populations from the other species. According to the unified species concept, there is enough evidence for the recognition of M. tomentosa, M. laruotteana and M. selloi, but not for M. lajeana. These data will be used as the basis of a new taxonomic classification of the species in the M. laruotteana complex.
    Plant Systematics and Evolution 06/2014; 301(1). DOI:10.1007/s00606-014-1078-9 · 1.15 Impact Factor
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    • "In parallel, at the same taxonomic level, many other plant studies are based on gene sequencing data from nuclear or chloroplast DNA (Naciri and Gaudeul, 2007; Ruiz-Sanchez and Sosa, 2010). Finally, a number of papers include both methods, ISSR and gene sequencing, to characterize the relationships within species complexes yielding a more reliable data set (Li et al., 2008a; Meimberg et al., 2006; Rana et al., 2012). "
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    ABSTRACT: The taxonomy and systematics of Mexican Lupinus are lacking in resolution, because the taxa are distinguished using a few minor and inconsistent morphological characters. The use of molecular markers can contribute to re-solving such issues. In this study, we focused on two varieties of the Lupinus montanus complex (Fabaceae) in Mexico, L. montanus subsp. montanus var. montanus and L. montanus subsp. montanus var. nelsonii, and aimed to determine the most suitable genetic markers for clarifying taxon delimitation based on morphology. We com-pared hypervariable Inter Simple Sequence Repeats (ISSR) to gene sequences (External Transcribed Spacer (ETS) and Conserved Orthologous Sets (COS)). Distance analysis (ISSR) and maximum likelihood (ETS + COS) generated congruent results but with much more variability and resolution for ISSR. These data confirm the potential of ISSR for working at low taxonom-ic level and their reliability compared to that of gene sequences.
    South African Journal of Botany 08/2013; 89:106-110. DOI:10.1016/j.sajb.2013.06.021 · 1.34 Impact Factor
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    ABSTRACT: The patterns of relationships between species of Opuntia from southern South America are scarcely known in spite of the importance of this region as a diversification center for the Cactaceae. This paper contributes to the better understanding of the genetic and phylogenetic relationships of 15 Opuntia species from Argentina, Bolivia, Brazil, Paraguay, and Uruguay by generating new genetic data through Inter-Simple Sequence Repeat (ISSR) genotyping and the sequencing of plastid intergenic spacers trnL-trnF and psbJ-petA. The species surveyed are: O. anacantha, O. arechavaletae, O. aurantiaca, O. bonaerensis, O. colubrina, O. discolor, O. elata, O. megapotamica, O. monacantha, O. penicilligera, O. quimilo, O. salmiana, O. schickendantzii, O. sulphurea, and O. ventanensis. The genetic distance-based analysis of 110 ISSR bands, applying the Neighbor-Joining and NeighborNet algorithms, evidenced considerable intraspecific variation in O. aurantiaca, O. elata, O. discolor, and O. salmiana. The emergent clustering pattern and the species assignment to taxonomic series show a general agreement for Armatae and Aurantiacae. The phylogenetic relationships were investigated via haplotype network and maximum likelihood approaches, within a broader sampling that involves most species currently accepted for South America, and samples from throughout the American continent. Hence, 15 haplotypes are recognized for southern South American opuntias whereas eight haplotypes are established for Northern Hemisphere opuntias. Biparentally and maternally inherited genetic data yield partially consistent results, giving genetic support for morphologically defined taxonomic series.
    Plant Systematics and Evolution 04/2014; 301(4):1-12. DOI:10.1007/s00606-014-1154-1 · 1.15 Impact Factor
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