<i>SIRE-1</i>
            , a
            <i>copia/Ty1</i>
            -like retroelement from soybean, encodes a retroviral envelope-like protein

Laten, Howard M.; Majumdar, Angshuman; Gaucher, Eric A.

doi:10.1073/pnas.95.12.6897

Cited by 108 publications

(79 citation statements)

References 79 publications

(85 reference statements)

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…Copy number of this element may go from a few copies to as high as 10,000 copies per haploid genome in some phyla (Jarvik and Lark, 1998). A family of a copia/Ty1-like retroelement (SIRE-1) has also been characterized (Laten et al, 1998). This family consists of only a few hundred members and each member is approximately 11 kb.…”

Section: Current Status Of Soybean Genomicsmentioning

confidence: 99%

National Science Foundation-Sponsored Workshop Report. Draft Plan for Soybean Genomics

et al. 2004

View full text Add to dashboard Cite

Recent efforts to coordinate and define a research strategy for soybean (Glycine max) genomics began with the establishment of a Soybean Genetics Executive Committee, which will serve as a communication focal point between the soybean research community and granting agencies. Secondly, a workshop was held to define a strategy to incorporate existing tools into a framework for advancing soybean genomics research. This workshop identified and ranked research priorities essential to making more informed decisions as to how to proceed with large scale sequencing and other genomics efforts. Most critical among these was the need to finalize a physical map and to obtain a better understanding of genome microstructure. Addressing these research needs will require pilot work on new technologies to demonstrate an ability to discriminate between recently duplicated regions in the soybean genome and pilot projects to analyze an adequate amount of random genome sequence to identify and catalog common repeats. The development of additional markers, reverse genetics tools, and bioinformatics is also necessary. Successful implementation of these goals will require close coordination among various working groups.

show abstract

Section: Current Status Of Soybean Genomicsmentioning

confidence: 99%

National Science Foundation-Sponsored Workshop Report. Draft Plan for Soybean Genomics

et al. 2004

View full text Add to dashboard Cite

show abstract

“…Two SIRE1 elements inserted into same tract of bean genome, the most unusual of which is the SIRE1 element (Laten and Morris 1993), which falls into the STR102 repeats with possible site-specific integration. Later one element was removed via unequal recombinacopia/Ty1 family (Laten et al 1998). Laten et al (2003) found that the flanking sequences of 3 of 10 SIRE1 tion (described below), leaving the solo LTR.…”

Section: ϫ4mentioning

confidence: 99%

Pericentromeric Regions of Soybean (Glycine max L. Merr.) Chromosomes Consist of Retroelements and Tandemly Repeated DNA and Are Structurally and Evolutionarily Labile

et al. 2005

View full text Add to dashboard Cite

Little is known about the physical makeup of heterochromatin in the soybean (Glycine max L. Merr.) genome. Using DNA sequencing and molecular cytogenetics, an initial analysis of the repetitive fraction of the soybean genome is presented. BAC 076J21, derived from linkage group L, has sequences conserved in the pericentromeric heterochromatin of all 20 chromosomes. FISH analysis of this BAC and three subclones on pachytene chromosomes revealed relatively strict partitioning of the heterochromatic and euchromatic regions. Sequence analysis showed that this BAC consists primarily of repetitive sequences such as a 102-bp tandem repeat with sequence identity to a previously characterized ‫-021ف‬bp repeat (STR120). Fragments of Calypso-like retroelements, a recently inserted SIRE1 element, and a SIRE1 solo LTR were present within this BAC. Some of these sequences are methylated and are not conserved outside of G. max and G. soja, a close relative of soybean, except for STR102, which hybridized to a restriction fragment from G. latifolia. These data present a picture of the repetitive fraction of the soybean genome that is highly concentrated in the pericentromeric regions, consisting of rapidly evolving tandem repeats with interspersed retroelements.

show abstract

“…To confirm that these sequences were enriched specifically in the centromeric regions and not pericentromeric regions, we utilized a previously isolated bacterial artificial chromosome (BAC), 76J21, that localizes to the pericentromeric regions of all 40 chromosomes (Lin et al, 2005) and contains previously described soybean repeats STR120 (Morgante et al, 1997) and the retrotransposon SIRE1 (Laten et al, 1998). FISH of BAC 76J21 in combination with CentGm-1 and CentGm-2 repeats to premeiotic pachytene chromosomes revealed that both centromeric repeats marked the primary constrictions exclusively (Fig.…”

Section: Identification and Cytological Verification Of Centromeric Smentioning

confidence: 99%

Molecular and Chromosomal Evidence for Allopolyploidy in Soybean

et al. 2009

View full text Add to dashboard Cite

Recent studies have documented that the soybean (Glycine max) genome has undergone two rounds of large-scale genome and/or segmental duplication. To shed light on the timing and nature of these duplication events, we characterized and analyzed two subfamilies of high-copy centromeric satellite repeats, CentGm-1 and CentGm-2, using a combination of computational and molecular cytogenetic approaches. These two subfamilies of satellite repeats mark distinct subsets of soybean centromeres and, in at least one case, a pair of homologs, suggesting their origins from an allopolyploid event. The satellite monomers of each subfamily are arranged in large tandem arrays, and intermingled monomers of the two subfamilies were not detected by fluorescence in situ hybridization on extended DNA fibers nor at the sequence level. This indicates that there has been little recombination and homogenization of satellite DNA between these two sets of centromeres. These satellite repeats are also present in Glycine soja, the proposed wild progenitor of soybean, but could not be detected in any other relatives of soybean examined in this study, suggesting the rapid divergence of the centromeric satellite DNA within the Glycine genus. Together, these observations provide direct evidence, at molecular and chromosomal levels, in support of the hypothesis that the soybean genome has experienced a recent allopolyploidization event.

show abstract

SIRE-1 , a copia/Ty1 -like retroelement from soybean, encodes a retroviral envelope-like protein

Cited by 108 publications

References 79 publications

National Science Foundation-Sponsored Workshop Report. Draft Plan for Soybean Genomics

National Science Foundation-Sponsored Workshop Report. Draft Plan for Soybean Genomics

Pericentromeric Regions of Soybean (Glycine max L. Merr.) Chromosomes Consist of Retroelements and Tandemly Repeated DNA and Are Structurally and Evolutionarily Labile

Molecular and Chromosomal Evidence for Allopolyploidy in Soybean

Contact Info

Product

Resources

About