Development of amplified consensus genetic markers (ACGM) in Brassica napus from Arabidopsis thaliana sequences of known biological function

Genome ◽  
1999 ◽  
Vol 42 (3) ◽  
pp. 387-402 ◽  
Author(s):  
Dominique Brunel ◽  
Nicole Froger ◽  
Georges Pelletier
Keyword(s):  
Arabidopsis Thaliana ◽  
Brassica Napus ◽  
Genetic Markers ◽  
Biological Function ◽  
Parental Species ◽  
Direct Sequencing ◽  
Brassica Species ◽  
Degenerate Primers ◽  
Coding Sequences ◽  
Pcr Products

A method for the development of consensus genetic markers between species of the same taxonomic family is described in this paper. It is based on the conservation of the peptide sequences and on the potential polymorphism within non-coding sequences. Six loci sequenced from Arabidopsis thaliana, AG, LFY3, AP3, FAD7, FAD3, and ADH, were analysed for one ecotype of A. thaliana, four lines of Brassica napus, and one line for each parental species, Brassica oleracea and Brassica rapa. Positive amplifications with the degenerate primers showed one band for A. thaliana, two to four bands in rapeseed, and one to two bands in the parental species. Direct sequencing of the PCR products confirms their peptide similarity with the "mother" sequence. By comparison of intron sequences, the correspondence between each rapeseed gene and its homologue in one of the parental species can be determined without ambiguity. Another important result is the presence of a polymorphism inside these fragments between the rapeseed lines. This variability could generally be detected by differences of electrophoretic migration on long non-denaturing polyacrylamide gels. This method enables a quick and easy shuttle between A. thaliana and Brassica species without cloning.Key words: consensus genetics markers, PCR specific, Brassica, Arabidopsis, targeted markers, DSCP.

From Arabidopsis thaliana to Brassica napus: development of amplified consensus genetic markers (ACGM) for construction of a gene map

2002 ◽  
Vol 105 (8) ◽  
pp. 1196-1206 ◽  
Author(s):  
M. Fourmann ◽  
P. Barret ◽  
N. Froger ◽  
C. Baron ◽  
F. Charlot ◽  
...  
Keyword(s):  
Arabidopsis Thaliana ◽  
Brassica Napus ◽  
Genetic Markers ◽  
Gene Map

Genes encoding the α-carboxyltransferase subunit of acetyl-CoA carboxylase from Brassica napus and parental species: cloning, expression patterns, and evolution

Genome ◽  
2010 ◽  
Vol 53 (5) ◽  
pp. 360-370 ◽  
Author(s):  
Zhi-Guo Li ◽  
Wei-Bo Yin ◽  
Huan Guo ◽  
Li-Ying Song ◽  
Yu-Hong Chen ◽  
...  
Keyword(s):  
Brassica Napus ◽  
Fatty Acid Biosynthesis ◽  
Parental Species ◽  
Expression Patterns ◽  
Brassica Species ◽  
Orthologous Gene ◽  
Glucuronidase Activity ◽  
Genes Encoding ◽  
Group 2 ◽  
Group 1

Heteromeric acetyl coenzyme A carboxylase (ACCase), a rate-limiting enzyme in fatty acid biosynthesis in dicots, is a multi-enzyme complex consisting of biotin carboxylase, biotin carboxyl carrier protein, and carboxyltransferase (α-CT and β-CT). In the present study, four genes encoding α-CT were cloned from Brassica napus , and two were cloned from each of the two parental species, B. rapa and B. oleracea . Comparative and cluster analyses indicated that these genes were divided into two major groups. The major divergence between group-1 and group-2 occurred in the second intron. Group-2 α-CT genes represented the ancestral form in the genus Brassica. The divergence of group-1 and group-2 genes occurred in their common ancestor 12.96–17.78 million years ago (MYA), soon after the divergence of Arabidopsis thaliana and Brassica (15–20 MYA). This time of divergence is identical to that reported for the paralogous subgenomes of diploid Brassica species (13–17 MYA). Real-time reverse transcription PCR revealed that the expression patterns of the two groups of genes were similar in different organs, except in leaves. To better understand the regulation and evolution of α-CT genes, promoter regions from two sets of orthologous gene copies from B. napus, B. rapa, and B. oleracea were cloned and compared. The function of the promoter of gene Bnα-CT-1-1 in group-1 and gene Bnα-CT-2-1 in group-2 was examined by assaying β-glucuronidase activity in transgenic A. thaliana. Our results will be helpful in elucidating the evolution and regulation of ACCase in oilseed rape.

Collinearity between a 30-centimorgan segment of Arabidopsis thaliana chromosome 4 and duplicated regions within the Brassica napus genome

Genome ◽  
1998 ◽  
Vol 41 (1) ◽  
pp. 62-69 ◽  
Author(s):  
A C Cavell ◽  
D J Lydiate ◽  
IAP Parkin ◽  
C Dean ◽  
M Trick
Keyword(s):  
Arabidopsis Thaliana ◽  
Brassica Napus ◽  
Physical Map ◽  
Brassica Species ◽  
Single Copy ◽  
Genetic Maps ◽  
Haploid Genome ◽  
Chromosome 4 ◽  
Crop Species ◽  
Brassica Crop

Arabidopsis thaliana (the model dicotyledonous plant) is closely related to Brassica crop species. Genome collinearity, or conservation of marker order, between Brassica napus (oilseed rape) and A. thaliana was assessed over a 7.5-Mbp region of the long arm of A. thaliana chromosome 4, equivalent to 30 cM. Estimates of copy number indicated that sequences present in a single copy in the haploid genome of A. thaliana (n = 5) were present in 2-8 copies in the haploid genome of B. napus (n = 19), while sequences present in multiple copies in A. thaliana were present in over 10 copies in B. napus. Genetic mapping in B. napus of DNA markers derived from a segment of A. thaliana chromosome 4 revealed duplicated homologous segments in the B. napus genome. Physical mapping in A. thaliana of homologues of Brassica clones derived from these regions confirmed the identity of six duplicated segments with substantial homology to the 7.5-Mbp region of chromosome 4 in A. thaliana. These six duplicated Brassica regions (on average 22cM in length) are collinear, except that two of the six copies contain the same large internal inversion. These results have encouraging implications for the feasibility of shuttling between the physical map of A. thaliana and genetic maps of Brassica species, for identifying candidate genes and for map based gene cloning in Brassica crops.

scholarly journals Arabidopsis thaliana G3BP Ortholog Rescues Mammalian Stress Granule Phenotype across Kingdoms

2021 ◽  
Vol 22 (12) ◽  
pp. 6287
Author(s):  
Hendrik Reuper ◽  
Benjamin Götte ◽  
Lucy Williams ◽  
Timothy J. C. Tan ◽  
Gerald M. McInerney ◽  
...  
Keyword(s):  
Arabidopsis Thaliana ◽  
Fusion Proteins ◽  
Biological Function ◽  
Protein Complexes ◽  
Protein Family ◽  
Knock Out ◽  
Marker Proteins ◽  
Interaction Partners ◽  
Functional Analyses ◽  
Rna Protein Complexes

Stress granules (SGs) are dynamic RNA–protein complexes localized in the cytoplasm that rapidly form under stress conditions and disperse when normal conditions are restored. The formation of SGs depends on the Ras-GAP SH3 domain-binding protein (G3BP). Formations, interactions and functions of plant and human SGs are strikingly similar, suggesting a conserved mechanism. However, functional analyses of plant G3BPs are missing. Thus, members of the Arabidopsis thaliana G3BP (AtG3BP) protein family were investigated in a complementation assay in a human G3BP knock-out cell line. It was shown that two out of seven AtG3BPs were able to complement the function of their human homolog. GFP-AtG3BP fusion proteins co-localized with human SG marker proteins Caprin-1 and eIF4G1 and restored SG formation in G3BP double KO cells. Interaction between AtG3BP-1 and -7 and known human G3BP interaction partners such as Caprin-1 and USP10 was also demonstrated by co-immunoprecipitation. In addition, an RG/RGG domain exchange from Arabidopsis G3BP into the human G3BP background showed the ability for complementation. In summary, our results support a conserved mechanism of SG function over the kingdoms, which will help to further elucidate the biological function of the Arabidopsis G3BP protein family.

scholarly journals Dehiscence-related expression of an Arabidopsis thaliana gene encoding a polygalacturonase in transgenic plants of Brassica napus

1999 ◽  
Vol 22 (2) ◽  
pp. 159-167 ◽  
Author(s):  
E. S. JENKINS ◽  
W. PAUL ◽  
M. CRAZE ◽  
C. A. WHITELAW ◽  
A. WEIGAND ◽  
...  
Keyword(s):  
Arabidopsis Thaliana ◽  
Brassica Napus ◽  
Transgenic Plants ◽  
Gene Encoding

‘Pod shatter’ in Arabidopsis thaliana Brassica napus and B. juncea

1996 ◽  
Vol 181 (2) ◽  
pp. 195-203 ◽  
Author(s):  
J. SPENCE ◽  
Y. VERCHER ◽  
P. GATES ◽  
N. HARRIS
Keyword(s):  
Arabidopsis Thaliana ◽  
Brassica Napus ◽  
Pod Shatter

UV dose-dependent DNA elimination in asymmetric somatic hybrids between Brassica napus and Arabidopsis thaliana

Plant Science ◽  
1998 ◽  
Vol 131 (1) ◽  
pp. 65-76 ◽  
Author(s):  
Johanna Forsberg ◽  
Christina Dixelius ◽  
Ulf Lagercrantz ◽  
Kristina Glimelius
Keyword(s):  
Arabidopsis Thaliana ◽  
Brassica Napus ◽  
Somatic Hybrids ◽  
Asymmetric Somatic Hybrids ◽  
Dna Elimination ◽  
Uv Dose ◽  
Dose Dependent

scholarly journals Detection of erythromycin-resistant determinants by PCR.

1996 ◽  
Vol 40 (11) ◽  
pp. 2562-2566 ◽  
Author(s):  
J Sutcliffe ◽  
T Grebe ◽  
A Tait-Kamradt ◽  
L Wondrack
Keyword(s):  
Direct Sequencing ◽  
Pcr Primers ◽  
Efflux Pumps ◽  
Clinical Isolates ◽  
Gene Products ◽  
Mechanisms Of Resistance ◽  
Erythromycin Resistance ◽  
Surveillance Studies ◽  
Resistance Determinants ◽  
Pcr Products

Erythromycin resistance determinants include Erm methylases, efflux pumps, and inactivating enzymes. To distinguish the different mechanisms of resistance in clinical isolates, PCR primers were designed so that amplification of the partial gene products could be detected in multiplex PCRs. This methodology enables the direct sequencing of amplified PCR products that can be used to compare resistance determinants in clinical strains. Further, this methodology could be useful in surveillance studies of erythromycin-resistant determinants.

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