Development of indel markers from Citrus clementina (Rutaceae) BAC-end sequences and interspecific transferability in Citrus

2012 ◽  
Vol 99 (7) ◽  
pp. e268-e273 ◽  
Author(s):  
F. Ollitrault ◽  
J. Terol ◽  
A. A. Martin ◽  
J. A. Pina ◽  
L. Navarro ◽  
...  
Keyword(s):  
Citrus Clementina ◽  
Indel Markers ◽  
End Sequences

Development of SSR markers from Citrus clementina (Rutaceae) BAC end sequences and interspecific transferability in Citrus

2010 ◽  
Vol 97 (11) ◽  
pp. e124-e129 ◽  
Author(s):  
Frédérique Ollitrault ◽  
Javier Terol ◽  
Jose Antonio Pina ◽  
Luis Navarro ◽  
Manuel Talon ◽  
...  
Keyword(s):  
Ssr Markers ◽  
Citrus Clementina ◽  
End Sequences

scholarly journals Development and validation of genome-wide InDel markers with high levels of polymorphism in bitter gourd (Momordica charantia)

BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Junjie Cui ◽  
Jiazhu Peng ◽  
Jiaowen Cheng ◽  
Kailin Hu
Keyword(s):  
Genetic Map ◽  
Average Density ◽  
Momordica Charantia ◽  
Bitter Gourd ◽  
Map Construction ◽  
Indel Markers ◽  
Genome Wide ◽  
Indel Polymorphisms ◽  
Molecular Marker Development ◽  
Development And Validation

Abstract Background The preferred choice for molecular marker development is identifying existing variation in populations through DNA sequencing. With the genome resources currently available for bitter gourd (Momordica charantia), it is now possible to detect genome-wide insertion-deletion (InDel) polymorphisms among bitter gourd populations, which guides the efficient development of InDel markers. Results Here, using bioinformatics technology, we detected 389,487 InDels from 61 Chinese bitter gourd accessions with an average density of approximately 1298 InDels/Mb. Then we developed a total of 2502 unique InDel primer pairs with a polymorphism information content (PIC) ≥0.6 distributed across the whole genome. Amplification of InDels in two bitter gourd lines ‘47–2–1-1-3’ and ‘04–17,’ indicated that the InDel markers were reliable and accurate. To highlight their utilization, the InDel markers were employed to construct a genetic map using 113 ‘47–2–1-1-3’ × ‘04–17’ F2 individuals. This InDel genetic map of bitter gourd consisted of 164 new InDel markers distributed on 15 linkage groups with a coverage of approximately half of the genome. Conclusions This is the first report on the development of genome-wide InDel markers for bitter gourd. The validation of the amplification and genetic map construction suggests that these unique InDel markers may enhance the efficiency of genetic studies and marker-assisted selection for bitter gourd.

scholarly journals A human–horse comparative map based on equine BAC end sequences

Genomics ◽  
2006 ◽  
Vol 87 (6) ◽  
pp. 772-776 ◽  
Author(s):  
Tosso Leeb ◽  
Claus Vogl ◽  
Baoli Zhu ◽  
Pieter J. de Jong ◽  
Matthew M. Binns ◽  
...  
Keyword(s):  
Comparative Map ◽  
End Sequences

scholarly journals Site-Directed Mutagenesis Studies of Tn5 Transposase Residues Involved in Synaptic Complex Formation

2007 ◽  
Vol 189 (20) ◽  
pp. 7436-7441 ◽  
Author(s):  
Soheila Vaezeslami ◽  
Rachel Sterling ◽  
William S. Reznikoff
Keyword(s):  
Complex Formation ◽  
Catalytic Reactions ◽  
Site Directed Mutagenesis ◽  
Dna Interactions ◽  
Synaptic Complex ◽  
Biochemical Assays ◽  
Protein Dna Interactions ◽  
End Sequences ◽  
Tn5 Transposase ◽  
Cocrystal Structure

ABSTRACT Transposition (the movement of discrete segments of DNA, resulting in rearrangement of genomic DNA) initiates when transposase forms a dimeric DNA-protein synaptic complex with transposon DNA end sequences. The synaptic complex is a prerequisite for catalytic reactions that occur during the transposition process. The transposase-DNA interactions involved in the synaptic complex have been of great interest. Here we undertook a study to verify the protein-DNA interactions that lead to synapsis in the Tn5 system. Specifically, we studied (i) Arg342, Glu344, and Asn348 and (ii) Ser438, Lys439, and Ser445, which, based on the previously published cocrystal structure of Tn5 transposase bound to a precleaved transposon end sequence, make cis and trans contacts with transposon end sequence DNA, respectively. By using genetic and biochemical assays, we showed that in all cases except one, each of these residues plays an important role in synaptic complex formation, as predicted by the cocrystal structure.

Intervention Thresholds for Aphis spiraecola (Hemiptera: Aphididae) on Citrus clementina

2006 ◽  
Vol 99 (4) ◽  
pp. 1273-1279
Author(s):  
A. HermosoDeMendoza ◽  
R. Arouni ◽  
B. Belliure ◽  
E. A. Carbonell ◽  
J. Pérez-Panadés
Keyword(s):  
Intervention Thresholds ◽  
Citrus Clementina ◽  
Aphis Spiraecola

Compositional Distribution of Binary Living Copolymers and Their End Sequences

2021 ◽  
pp. 2100002
Author(s):  
Olga Trhlíková ◽  
Zuzana Walterová ◽  
Miroslav Janata ◽  
Lívia Kanizsová ◽  
Jiří Horský
Keyword(s):  
Compositional Distribution ◽  
End Sequences

Development of Chloroplast-based InDel Markers for the Discrimination of Schisandraceae Plant Species

2021 ◽  
Vol 29 (1) ◽  
pp. 11-16
Author(s):  
Hee Jeong Jeong ◽  
Yi Lee ◽  
Jea Bok Lee ◽  
Jin Su Gil ◽  
Chang Pyo Hong ◽  
...  
Keyword(s):  
Plant Species ◽  
Indel Markers
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