Characterization of equine cDNA sequences for αS1-, β- and κ-casein

2003 ◽  
Vol 70 (1) ◽  
pp. 29-36 ◽  
Author(s):  
Tina Lenasi ◽  
Irena Rogelj ◽  
Peter Dovc
Keyword(s):  
Dna Sequences ◽  
Genomic Dna ◽  
Genomic Region ◽  
Interspecies Comparison ◽  
Cryptic Exon ◽  
Conserved Sequence ◽  
Cdna Sequences ◽  
Sequence Identity ◽  
Lactating Mammary Gland

Here we report the entire cDNA sequences for equine αS1-, β- and κ-casein. Based on interspecies comparison, nine exons were found in equine β-casein and five in κ-casein. In equine αS1-casein cDNA the exon 5 was missing, which resulted in the total of 18 exons instead of 19 theoretically possible exons in αS1-casein cDNA. Comparison of DNA sequences representing exon 5 in other species with corresponding equine genomic region confirmed the presence of cryptic exon in horse genomic DNA. Equine αS1-casein mRNA was present in three forms in the lactating mammary gland and we showed that the two shorter forms were produced by skipping either the exon 8 or exon 15. In horse, as in some other mammals, β- and κ-casein are considerably more conserved (sequence identity 53% to 59% and 57% to 67%, respectively) than αS1-casein which appears as the most variable casein among species (sequence identity 40% to 54%). Interestingly, horse caseins resemble human much more than bovine caseins which may also explain the high dietetic value of mares' milk.

Characterization of Salt Overly Sensitive 1 (SOS1) gene homoeologs in quinoa (Chenopodium quinoa Willd.)

Genome ◽  
2009 ◽  
Vol 52 (7) ◽  
pp. 647-657 ◽  
Author(s):  
P. J. Maughan ◽  
T. B. Turner ◽  
C. E. Coleman ◽  
D. B. Elzinga ◽  
E. N. Jellen ◽  
...  
Keyword(s):  
Salt Tolerance ◽  
Dna Sequences ◽  
Genomic Sequence ◽  
Chenopodium Quinoa ◽  
Fish Analysis ◽  
Cdna Sequences ◽  
Grain Crop ◽  
High Level ◽  
Salt Overly Sensitive

Salt tolerance is an agronomically important trait that affects plant species around the globe. The Salt Overly Sensitive 1 (SOS1) gene encodes a plasma membrane Na+/H+ antiporter that plays an important role in germination and growth of plants in saline environments. Quinoa (Chenopodium quinoa Willd.) is a halophytic, allotetraploid grain crop of the family Amaranthaceae with impressive nutritional content and an increasing worldwide market. Many quinoa varieties have considerable salt tolerance, and research suggests quinoa may utilize novel mechanisms to confer salt tolerance. Here we report the cloning and characterization of two homoeologous SOS1 loci (cqSOS1A and cqSOS1B) from C. quinoa, including full-length cDNA sequences, genomic sequences, relative expression levels, fluorescent in situ hybridization (FISH) analysis, and a phylogenetic analysis of SOS1 genes from 13 plant taxa. The cqSOS1A and cqSOS1B genes each span 23 exons spread over 3477 bp and 3486 bp of coding sequence, respectively. These sequences share a high level of similarity with SOS1 homologs of other species and contain two conserved domains, a Nhap cation-antiporter domain and a cyclic-nucleotide binding domain. Genomic sequence analysis of two BAC clones (98 357 bp and 132 770 bp) containing the homoeologous SOS1 genes suggests possible conservation of synteny across the C. quinoa sub-genomes. This report represents the first molecular characterization of salt-tolerance genes in a halophytic species in the Amaranthaceae as well as the first comparative analysis of coding and non-coding DNA sequences of the two homoeologous genomes of C. quinoa.

scholarly journals Computational and Experimental Characterization of Physically Clustered Simple Sequence Repeats in Plants

Genetics ◽  
2000 ◽  
Vol 156 (2) ◽  
pp. 847-854
Author(s):  
Linda Cardle ◽  
Luke Ramsay ◽  
Dan Milbourne ◽  
Malcolm Macaulay ◽  
David Marshall ◽  
...  
Keyword(s):  
Dna Sequences ◽  
Simple Sequence Repeats ◽  
Genomic Dna ◽  
Sequence Data ◽  
Average Frequency ◽  
Dna Sequence Data ◽  
Ssr Frequency ◽  
Copy Dna ◽  
Simple Sequence

Abstract The type and frequency of simple sequence repeats (SSRs) in plant genomes was investigated using the expanding quantity of DNA sequence data deposited in public databases. In Arabidopsis, 306 genomic DNA sequences longer than 10 kb and 36,199 EST sequences were searched for all possible mono- to pentanucleotide repeats. The average frequency of SSRs was one every 6.04 kb in genomic DNA, decreasing to one every 14 kb in ESTs. SSR frequency and type differed between coding, intronic, and intergenic DNA. Similar frequencies were found in other plant species. On the basis of these findings, an approach is proposed and demonstrated for the targeted isolation of single or multiple, physically clustered SSRs linked to any gene that has been mapped using low-copy DNA-based markers. The approach involves sample sequencing a small number of subclones of selected randomly sheared large insert DNA clones (e.g., BACs). It is shown to be both feasible and practicable, given the probability of fortuitously sequencing through an SSR. The approach is demonstrated in barley where sample sequencing 34 subclones of a single BAC selected by hybridization to the Big1 gene revealed three SSRs. These allowed Big1 to be located at the top of barley linkage group 6HS.

ISOLATION AND CHARACTERIZATION OF GENOMIC DNA SEQUENCES CODING FOR THE PRO α2 CHAIN OF SHEEP TYPE I PROCOLLAGEN

1980 ◽  
pp. 417
Author(s):  
Paul Tolstoshev ◽  
Charles D. Boyd ◽  
Millie P. Schafer ◽  
Bruce C. Trapnell ◽  
Helen C. Coon ◽  
...  
Keyword(s):  
Dna Sequences ◽  
Genomic Dna ◽  
Type I ◽  
Type I Procollagen ◽  
Isolation And Characterization

A reliable amplification technique for the characterization of genomic DNA sequences flanking insertion sequences

1998 ◽  
Vol 158 (1) ◽  
pp. 75-81 ◽  
Author(s):  
Guy Prod'hom ◽  
Béatrice Lagier ◽  
Vladimir Pelicic ◽  
Allan J Hance ◽  
Brigitte Gicquel ◽  
...  
Keyword(s):  
Dna Sequences ◽  
Genomic Dna ◽  
Insertion Sequences ◽  
Amplification Technique

Cloning and Characterization of a Flavanone 3-Hydroxylase Gene from Ginkgo biloba

2006 ◽  
Vol 26 (1) ◽  
pp. 19-29 ◽  
Author(s):  
Guoan Shen ◽  
Yongzhen Pang ◽  
Weisheng Wu ◽  
Zhongxiang Deng ◽  
Lingxia Zhao ◽  
...  
Keyword(s):  
Dna Sequences ◽  
Genomic Dna ◽  
Dna Analysis ◽  
Full Length ◽  
Dimensional Structure ◽  
Typical Structure ◽  
Transcription Analysis ◽  
Full Length Cdna ◽  
Isolation And Characterization

Flavanone 3-hydroxylase (F3H) activity is necessary for the biosynthesis of flavonoids, the main ingredients of Gingko biloba extract. The full-length cDNA and genomic DNA sequences of F3H gene were isolated from G. biloba for the first time. The full-length cDNA of G. biloba F3H gene (designated as GbF3H) contained a 1071 bp open reading frame (ORF) encoding a 357-amino-acid protein with a calculated molecular weight of about 40 kDa and isoelectric point (pI) of 5.57. The genomic DNA analysis showed that GbF3H gene had three exons and two introns. The deduced GbF3H protein showed high identities to other plant F3Hs. The conserved amino acids ligating ferrous iron and residues participating in 2-oxoglutarate binding (R-X-S) were found in GbF3H at the similar positions like other F3Hs. Three-dimensional structure modeling showed that GbF3H had a jerry roll in the enzyme core consisted of β-sheet, a typical structure shared by all 2-oxoglutarate-dependent dioxygenases including F3Hs. Phylogenetic tree analysis revealed that GbF3H shared the same ancestor in evolution with other F3Hs and had a further relationship with other angiosperms species. Southern blot analysis indicated that GbF3H belonged to a multi-gene family. Transcription analysis revealed that GbF3H expressed in stem and leaf with the highest transcription level in leaf. The isolation and characterization of GbF3H gene will be helpful to further study the role of GbF3H gene in the biosynthesis of flavonoids in G. biloba.

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