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Journal ArticleDOI

Identification of a male-specific amplified fragment length polymorphism (AFLP) marker in Broussonetia papyrifera

24 Apr 2012-African Journal of Biotechnology (Academic Journals (Kenya))-Vol. 11, Iss: 33, pp 8196-8201

TL;DR: The present study exhibits amplified fragment length polymorphism (AFLP) molecular marker for sex identification in Broussonetia papyrifera based on nine selective amplification primer combinations and indicates that common homology sequence is existed in both male and female plants.

AbstractThe present study exhibits amplified fragment length polymorphism (AFLP) molecular marker for sex identification in Broussonetia papyrifera . Based on nine selective amplification primer combinations, 230 bands were produced and the E -AGG/M-CAA combination was found to be a male-specific AFLP marker. Subsequently, this male-specific AFLP fragment was sequenced and converted into a sequence tagged site (STS) marker. Based on STS sequence, two primers, MADB-1 and MADB-2 (Male-Associated DNA from B. papyrifera ), were designed to verify the specificity of the fragment. The results indicate that common homology sequence is existed in both male and female plants while one of the bands amplified via MADB-2 primer was solely present in male individuals at high annealing temperature up to 66°C. Finally, MADB-2 primer was introduced to amplify another 16 plants and it revealed that this primer could be used as a convenient, efficient, reliable, and low-cost molecular marker for sex identification in B. papyrifera . Keywords: Broussonetia papyrifera , AFLP, STS, male-specific marker

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Citations
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Journal ArticleDOI
TL;DR: The present review emphasizes the mode of sex determination among dioecious plants vis-a-vis summarizes the works related to gender specific markers generated using male and female plants from agriculturally important dioemious crops.
Abstract: Flowering plants are known to exhibit vast diversity of sexual systems encompassing bisexual, monoecious and dioecious conditions. Dioecy offers opportunities to explore separately the male and female programmes giving an insight to the evolutionary, developmental and molecular processes leading to separate mechanisms for sex expression. Mechanisms controlling sex can either be genetic or epigenetic (physiological and environmental). Plant hormones too influence sex expression. An active Y sex determination system and an X to autosomes ratio systems are common amongst the flowering plants. Advances in our understanding of sex determination has been addressed both by conventional as well as molecular approaches. Using conventional techniques mainly cytogenetics, sex chromosomes in some dioecious plants have been identified and characterized. Surprisingly, the presence of well defined sex chromosomes was found in only few species. Some sex linked genes have also been identified and characterized using molecular approaches but none of these genes have a direct link to sex determination. Molecular markers have been employed to resolve the enigma associated with dioecism to a certain extent. Its application in plant breeding is immensely beneficial. Positively, it would be beneficial for validation of sex prior their sex expression at larger perspectives. The present review therefore emphasizes the mode of sex determination among dioecious plants vis-a-vis summarizes the works related to gender specific markers generated using male and female plants from agriculturally important dioecious crops.

32 citations


Cites background from "Identification of a male-specific a..."

  • ...Likewise, in Broussonetia papyrifera, a male specific AFLP marker (*476 bp) was also identified and converted into a STS marker, MADB2 that identified a specific fragment of 454 bp in all male individuals (Lianjun et al. 2012)....

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Journal ArticleDOI
TL;DR: Two unique ISSR markers, viz.
Abstract: DNA fingerprinting studies have been carried out with the physiologically mature male and female plants of Jojoba using 80 ISSR primers with a view to generate sex-linked markers. After bulk segregant analysis, two unique ISSR markers, viz. ISSR8481500 and VIS111317 have been developed which can be used for determining the sex at the seedling stage. Of the eighty primers tested on the pooled male DNA and pooled female DNA samples, six ISSR primers were found to be associated with sex expression. Of the six, only two primers ISSR848 and VIS11 generated unique male sex specific bands of ~1,500 and ~1,300 bp which were consecutively present in all the male genotypes and absent in all the respective female genotypes. The remaining four primers when tried on individuals of different genotypes were confined to their sex specificity in only two female genotypes and absent in their male counterparts. One of the male-sex specific markers, VIS111317 has also been cloned and sequenced which showed homology with a sex linked gene, DD44 from dioecious Silene species. Furthermore, VIS111317 was converted into a male sex-specific sequence tagged sites (STS) marker of 584 bp. The male specific STS marker thus developed has been verified and validated on 100 populations of male and female individuals from ten different genotypes of Jojoba to endorse the diagnostic reliability of the STS marker. This can gainfully be employed for screening of sex at seedling stage which would be quite helpful for uprooting the undesired plants, thereby, saving resources like labor, water, fertilizers and space for highly desirable female plants.

19 citations


Cites background from "Identification of a male-specific a..."

  • ...…and Jung Reamon-Buttner and Jung 2000), Borassus flabellifer (George et al. 2007), Buchloe dactyloides (Zhou et al. 2011), Broussonitia papyrifera (Lianjun et al. 2012), C. sativa (Flachowsky et al. 2001; Mandolino et al. 1999; Sakamoto et al. 1995; Torjek et al. 2002), Calamus simplicifolius (Li…...

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Journal ArticleDOI
16 Aug 2016-PLOS ONE
TL;DR: Most paper mulberry plants now present in the Pacific appear to be descended from female clones introduced prehistorically, with the presence of male and female plants in Near and Remote Oceania thought to reflect a dual origin.
Abstract: Fondo Nacional de Desarrollo Cientifico y Tecnologico from the Government of Chile 1080061 1120175 National Science Council, Taiwan NSC-102-2621-B-002-007

17 citations


Journal ArticleDOI
21 May 2014-PLOS ONE
TL;DR: This global expression analysis provided novel insights about the molecular mechanisms of the biosynthesis of flavonoid, lignin and cellulose, as well as on the response to biotic and abiotic stresses including the remediation of contaminated soil by the paper mulberry.
Abstract: The paper mulberry is one of the multifunctional tree species in agroforestry systems and is also commonly utilized in traditional medicine in China and other Asian countries. However, little is known about its molecular genetics, which hinders research on and exploitation of this valuable resource. To discern the correlation between gene expression and the essential properties of the paper mulberry, we performed a transcriptomics analysis, assembling a total of 37,725 unigenes from 54,638,676 reads generated by RNA-seq. Among these, 22,692 unigenes showed greater than 60% similarity with genes from other species. The lengths of 13,566 annotated unigenes were longer than 1,000 bp. Functional clustering analysis with COG (Cluster of Orthologous Groups) revealed that 17,184 unigenes are primarily involved in transcription, translation, signal transduction, carbohydrate metabolism, secondary metabolism, and energy metabolism. GO (Gene Ontology) annotation suggests enrichment of genes encoding antioxidant activity, transporter activity, biosynthesis, metabolism and stress response, with a total of 30,659 unigenes falling in these categories. KEGG (Kyoto Encyclopedia of Genes and Genomes) metabolic pathway analysis showed that 7,199 unigenes are associated with 119 metabolic pathways. In addition to the basic metabolism, these genes are enriched for plant pathogen interaction, flavonoid metabolism and other secondary metabolic processes. Furthermore, differences in the transcriptomes of leaf, stem and root tissues were analyzed and 7,233 specifically expressed unigenes were identified. This global expression analysis provided novel insights about the molecular mechanisms of the biosynthesis of flavonoid, lignin and cellulose, as well as on the response to biotic and abiotic stresses including the remediation of contaminated soil by the paper mulberry.

13 citations


Journal ArticleDOI
TL;DR: Insight is gained into the dispersal of paper mulberry into Oceania through the genetic analysis of herbaria samples which represent a more complete coverage of the historical geographical range of the species in the Pacific before later introductions and local extinctions occurred.
Abstract: Comision Nacional de Investigacion Cientifica y Tecnologica (CONICYT) from the Government of Chile Fondecyt 1120175 221320693 University of Chile

8 citations


References
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Journal ArticleDOI
TL;DR: The AFLP technique provides a novel and very powerful DNA fingerprinting technique for DNAs of any origin or complexity that allows the specific co-amplification of high numbers of restriction fragments.
Abstract: A novel DNA fingerprinting technique called AFLP is described. The AFLP technique is based on the selective PCR amplification of restriction fragments from a total digest of genomic DNA. The technique involves three steps: (i) restriction of the DNA and ligation of oligonucleotide adapters, (ii) selective amplification of sets of restriction fragments, and (iii) gel analysis of the amplified fragments. PCR amplification of restriction fragments is achieved by using the adapter and restriction site sequence as target sites for primer annealing. The selective amplification is achieved by the use of primers that extend into the restriction fragments, amplifying only those fragments in which the primer extensions match the nucleotides flanking the restriction sites. Using this method, sets of restriction fragments may be visualized by PCR without knowledge of nucleotide sequence. The method allows the specific co-amplification of high numbers of restriction fragments. The number of fragments that can be analyzed simultaneously, however, is dependent on the resolution of the detection system. Typically 50-100 restriction fragments are amplified and detected on denaturing polyacrylamide gels. The AFLP technique provides a novel and very powerful DNA fingerprinting technique for DNAs of any origin or complexity.

12,719 citations


"Identification of a male-specific a..." refers methods in this paper

  • ...Amplified fragment length polymorphism (AFLP), based on the selective PCR amplification technology was firstly developed by Vos et al. (1995)....

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Journal ArticleDOI
TL;DR: A synthesis of areas of AFLP technique, including comparison to other genotyping methods, assessment of errors, homoplasy, phylogenetic signal and appropriate analysis techniques are provided, with the aim of providing a review that will be applicable to all AFLP-based studies.
Abstract: Amplified fragment length polymorphism (AFLP) DNA fingerprinting is a firmly established molecular marker technique, with broad applications in population genetics, shallow phylogenetics, linkage mapping, parentage analyses, and single-locus PCR marker development. Technical advances have presented new opportunities for data analysis, and recent studies have addressed specific areas of the AFLP technique, including comparison to other genotyping methods, assessment of errors, homoplasy, phylogenetic signal and appropriate analysis techniques. Here we provide a synthesis of these areas and explore new directions for the AFLP technique in the genomic era, with the aim of providing a review that will be applicable to all AFLP-based studies.

619 citations


"Identification of a male-specific a..." refers background in this paper

  • ...After the initial finding, this efficient, high-thought technology has been thought to be an important molecular marker, and was widely applied in a variety of organisms from bacteria and fungi to plants and animals (Bensch and Akesson, 2005; Hua et al., 2009; Meudt and Clarke, 2007)....

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Journal ArticleDOI
TL;DR: A review of research areas in the study of wild species of animals where the AFLP method should be a very valuable tool to help molecular ecologists to identify when AFLP is likely to be superior to other more established methods, such as microsatellites, SNP (single nucleotide polymorphism) analyses and multigene DNA sequencing.
Abstract: Researchers in the field of molecular ecology and evolution require versatile and low-cost genetic typing methods. The AFLP (amplified fragment length polymorphism) method was introduced 10 years ago and shows many features that fulfil these requirements. With good quality genomic DNA at hand, it is relatively easy to generate anonymous multilocus DNA profiles in most species and the start-up time before data can be generated is often less than a week. Built-in dynamic, yet simple modifications make it possible to find a protocol suitable to the genome size of the species and to screen thousands of loci in hundreds of individuals for a relatively low cost. Until now, the method has primarily been applied in studies of plants, bacteria and fungi, with a strong bias towards economically important cultivated species and their pests. In this review we identify a number of research areas in the study of wild species of animals where the AFLP method, presently very much underused, should be a very valuable tool. These aspects include classical problems such as studies of population genetic structure and phylogenetic reconstructions, and also new challenges such as finding markers for genes governing adaptations in wild populations and modifications of the protocol that makes it possible to measure expression variation of multiple genes (cDNA-AFLP) and the distribution of DNA methylation. We hope this review will help molecular ecologists to identify when AFLP is likely to be superior to other more established methods, such as microsatellites, SNP (single nucleotide polymorphism) analyses and multigene DNA sequencing.

473 citations


"Identification of a male-specific a..." refers background in this paper

  • ...After the initial finding, this efficient, high-thought technology has been thought to be an important molecular marker, and was widely applied in a variety of organisms from bacteria and fungi to plants and animals (Bensch and Akesson, 2005; Hua et al., 2009; Meudt and Clarke, 2007)....

    [...]


Journal ArticleDOI
TL;DR: The conversion process of AFLP fragments to STS markers was technically difficult, mainly because of the presence of contaminating fragments, but a general verification strategy was formed prior to clone sequencing to reduce the frequency of false positives and to identify the correct clone.
Abstract: Amplified fragment length polymorphism (AFLP) markers were used to enrich the map of the wheat chromosomal region containing the Thinopyrum-derived Lr19 leaf rust resistance gene. The region closest to Lr19 was targeted through the use of deletion and recombinant lines of the translocated segment. One of the AFLP bands thus identified was converted into a sequence-tagged-site (STS) marker. This assay generated a 130-bp PCR fragment in all Lr19-carrying lines tested, except for one deletion mutant, while non-carrier template failed to amplify any product. This sequence represents the first marker to map on the distal side of Lr19 on chromosome 7el1. The conversion process of AFLP fragments to STS markers was technically difficult, mainly because of the presence of contaminating fragments. Various approaches were taken to reduce the frequency of false positives and to identify the correct clone. We were able to formulate a general verification strategy prior to clone sequencing. Various other factors causing problems with converting AFLP bands to an STS assays are also discussed.

172 citations


"Identification of a male-specific a..." refers background in this paper

  • ...It has been demonstrated that the majority of AFLP fragments were caused by single nucleotide polymorphisms (SNPs), insertion/deletion (indels) or point mutation at/within the restriction sites (Brugmans et al., 2003; Prins et al., 2001; von et al., 2003)....

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PatentDOI
Abstract: A composition and method of cancer treatment is disclosed. The composition and method utilize the extract of B. papyrifera, or compounds included therein having aromatase inhibition properties, as active cancer chemopreventative and treating agents in mammals, including humans.

138 citations