In most cereals, coding sequences account for less than 20% of the genome (Flavell et al., 1977;Barakat et al., 1997); the remaining part is composed mainly of repetitive sequences, among which microsatellites and retrotransposons are of particular importance. Retrotransposons are ubiquitous and abundant components of grass genomes, constituting a major fraction of repetitive sequences (approximately 10%-60% of the genome). In many species there is a positive correlation between the copy number of retrotransposons and genome size (Pearce et al., 1996;Vicient et al., 2001;Schulman et al., 2004). It is thought that even among individuals within one population there are differences in copy numbers of a given retrotransposon. Retrotransposons are excellent tools for detecting genetic diversity as they are major generators of genomic changes. Sequences generated from retrotransposon-based molecular markers are often more polymorphic than sequences generated from random amplified polymorphic DNA (RAPD), amplified fragment length polymorphism (AFLP), or restriction fragment length polymorphism (RFLP). Detection of inter-retrotransposon amplified polymorphisms (IRAPs) became a retrotransposon-based fingerprinting technique. IRAP markers are generated by amplification of sequences, embedded between 2 retrotransposons, using outward-facing primers annealing to long terminal repeat (LTR) target sequences. This marker system was used for the first time in barley, based on the BARE-1 retrotransposon (Kalendar et al., 1999;Vicient et al., 1999). It was also used in genetic studies of the diversity or phylogenetic relationships of Oryza L.
Polyploidy is an important event and major force in plant speciation. Amongst the polyploids, allopolyploids have attracted special attention to investigate genetic and epigenetic mechanisms. Also, they are the means for the development of new genotypes and genomic combinations to facilitate genetic enhancement and agricultural productivity. Whereas natural allopolyploids are genetically stable and well adapted, the newly synthesized ones are highly unstable. This instability is manifested into alterations at genomic and/or phenotypic level. Here we present the phenomenon of direct chromosome/chromatin elimination from pollen mother cells (PMCs) in wheat-rye hybrids as one aspect of instability leading to irregular meiosis and disturbances in meiotic process. One of the prominent irregularities noticed is peripherally separated uncondensed or pycnotic masses of chromatin in all meiotic stages. We have observed that this chromatin undergoes elimination by budding-like way, whereby a "mini-cell" is created. It was also found that nucleoli are the first to be eliminated along with a small mass of chromatin. By means of GISH we have shown that both rye and wheat chromatin might be eliminated. In the separated groups of chromosomes/ chromatin neither DNaseI nor DNase II activity was detected. Immunolocalization of tubulin allowed for differentiation between chromatin elimination from microspores and elimination from earlier stages of meiosis. It was noticeable, that in microspores special cytoskeleton structure pushing micronuclei out from the cells was created. Elimination occurred before and after meiosis as well as in each stage of meiotic division, but its intensity varied, depending on the PMC. The basis of the elimination mechanism might be the same as in cytomixis, because both phenomena share common symptoms, although cytomixis per se was rare in the analyzed hybrids.
Analysis of structural changes of octoploid triticale genomes was conducted in F 2 and F 3 generations. The plants were derived from crosses of five cultivars and breeding lines of hexaploid wheat (Triticum aestivum L.) with one cultivar of rye (Secale cereale L). The study used four marker systems: inter-simple sequence repeat (ISSR), inter-retrotransposon amplified polymorphism (IRAP), retrotransposon-microsatellite amplified polymorphism (REMAP), and a technique named inter-transposon amplified polymorphism (ITAP) developed by the authors. Most frequently, elimination of specific bands was observed, especially of rye bands. Depending on the cross combination, the percentage of eliminated rye bands ranged from 73.6 to 80.6 %. A lower percentage of wheat bands was eliminated, i.e., from 57.6 to 76.48 %, depending on the combination of crosses. The emergence of new types of bands in hybrids absent in the parental forms was the rarest phenomenon (14.5 -17.9 %). The results indicate the ongoing process of genome rearrangements at the molecular level in the early generations of plant crosses that also involve repeated nucleotide sequences of DNA.
Two synthetic populations (Syn-5 and Syn-7), four inbred lines and four landraces of alfalfa (Medicago sativa L.) were studied for genetic relatedness. These forms were characterized by different amount of seeds set and green mass yield. Two primer pairs of specific nucleotide sequences of mitochondrial DNA isolated from soybean were used. The mtDNA revealed the existence of significant polymorphism among the investigated forms of alfalfa. The genetic similarity (Dice coefficient) among studied forms of alfalfa ranged from 20.1 to 96.1. The greatest resemblances were noticed between D 5 inbred line and the population of Syn-5. The lowest resemblances were noticed between Syn-7 and E 1/2 . The UPGMA dendrogram split investigated forms of alfalfa into two groups: first group include three landraces, the second consist of the rest analyzed forms. There are two landraces distinct with the highest seed set and yield of green mass: one in the first group, another one in the second group.
Employing FISH analysis as well as BLAST and CUSTAL W (1.82) programs, we investigated types of DNA nucleotide sequences building an additional heterochromatic band in 2R chromosomes of 3 lines of Secale vavilovii Grossh. The probes used in FISH analysis were designed based on the reverse transcriptase sequence of Ty1-copia and Ty3-gypsy retrotransposons and the 5S rRNA gene sequence. No hybridization signals from the reverse transcriptase probes were observed in the chromosome region where the additional band occurs. On the other hand, signals were observed after hybridization with the 5S rDNA probe, clearly suggesting the presence of that type of sequences in the analyzed heterochromatin band. Using BLAST and CUSTAL W programs, we revealed high similarity of the JNK1 sequence to the 5S rRNA gene from Hordeum chilense (HCH1016, HCH1018, 88%) and to a fragment of the 5S rRNA sequence of H. marinum (HMAR003, 97%). In addition, the same fragment of JNK1 was shown to be very similar to the part of the Angela retrotransposon (92%) as well as to the SNAC 426K20-1 transposon (89%) belonging to CACTA family, both from Triticum monococcum, and to Zingeria biebersteiniana pericentromeric sequences (78%). The similarity of JNK1 to those sequences may be accidental or the JNK1 may represent an ancient mobile genetic element that caught the 5S rRNA sequence. During the evolution those sequences might have been accumulated in the particular region on the 2R chromosome. Our results suggest that the additional heterochromatin band in chromosomes 2R of S. vavilovii is a collection of defective genes and/or mobile genetic elements.
scite is a Brooklyn-based organization that helps researchers better discover and understand research articles through Smart Citations–citations that display the context of the citation and describe whether the article provides supporting or contrasting evidence. scite is used by students and researchers from around the world and is funded in part by the National Science Foundation and the National Institute on Drug Abuse of the National Institutes of Health.
hi@scite.ai
10624 S. Eastern Ave., Ste. A-614
Henderson, NV 89052, USA
Copyright © 2024 scite LLC. All rights reserved.
Made with 💙 for researchers
Part of the Research Solutions Family.