Isolation and analysis of genes induced by rehydration after serious drought in broomcorn millet (Panicum miliaceum L.) by SSH

2006 ◽  
Vol 3 (3) ◽  
pp. 237-242 ◽  
Author(s):  
Lin Fan-Yun ◽  
Hu Yin-Gang ◽  
Song Guo-Qi ◽  
Zhang Hong ◽  
Liu Tian-Ming ◽  
...  
Keyword(s):  
Expressed Sequence Tags ◽  
Rattus Norvegicus ◽  
Protein Processing ◽  
Panicum Miliaceum ◽  
Subtraction Hybridization ◽  
Suppressive Subtraction Hybridization ◽  
Broomcorn Millet ◽  
And Function ◽  
Expressed Sequence ◽  
Blast Result

AbstractIn order to investigate the molecular mechanism of rehydration after serious drought in broomcorn millet (Panicum miliaceum L.), a forward subtracted cDNA library was constructed between normal watered leaves and rehydrated leaves after serious drought conditions, using the suppressive subtraction hybridization (SSH) technique. A total of 60 positive clones were picked out at random from the subtracted library and sequenced, and redundancy sequences were removed after sequence alignment. Based on the results of sequence homologous comparison and function querying, 32 expressed sequence tags (EST) were highly homologous with known ESTs. Most of those sequences were related to either abiotic or biotic stress in plants. Of those sequences, 11 ESTs were homologous with ESTs in rat (Rattus norvegicus) liver after partial hepatectomy. The Blast result of proteins revealed that 28 ESTs were similar to known proteins. The functions of these proteins mainly involve signal transduction, transcription and protein processing. This experiment demonstrated that a range of specific genes was induced and expressed in broomcorn millet during the rehydration stage after serious drought.

scholarly journals Suppressive Subtraction Hybridization on Stimulated Primary Horse Macrophages

2006 ◽  
Vol 75 (3) ◽  
pp. 337-341
Author(s):  
J. Matiašovic ◽  
P. Králík ◽  
L. Leva ◽  
M. Faldyna ◽  
P. Hořín
Keyword(s):  
Expressed Sequence Tags ◽  
Sequence Similarity ◽  
Genetic Resistance ◽  
Macrophage Cell ◽  
Cdna Subtraction ◽  
Subtraction Hybridization ◽  
E Coli ◽  
Suppressive Subtraction Hybridization ◽  
Expressed Sequence ◽  
Overnight Culture

To study genes potentially involved in genetic resistance to infectious diseases in the horse, suppressive subtraction hybridization was used to identify genes expressed in primary horse macrophages after their stimulation with E. coli. Overnight culture of blood monocyte-derived macrophage cells was stimulated with E. coli K12 in ratio 40 E. coli cells to one macrophage cell. After 4 hours of incubation, non-phagocyted bacteria were washed away. Following next 20 hour incubation in MEM alpha containing 5 μg of gentamycin in 1 ml of media, mRNA was isolated and used in Clontech PCR-Select cDNA Subtraction Kit. Expression of several known horse genes, as well as some new ESTs (expressed sequence tags) showing sequence similarity with immunity-related genes from other species was identified.

scholarly journals Characterization of the protein processing and secretion pathways in a comprehensive set of expressed sequence tags fromTrichoderma reesei

2004 ◽  
Vol 230 (2) ◽  
pp. 275-282 ◽  
Author(s):  
S.E. Diener ◽  
N. Dunn-Coleman ◽  
P. Foreman ◽  
T.D. Houfek ◽  
P.J.M. Teunissen ◽  
...  
Keyword(s):  
Expressed Sequence Tags ◽  
Protein Processing ◽  
Secretion Pathways ◽  
Expressed Sequence

scholarly journals Analysis of Medicago truncatula Nodule Expressed Sequence Tags

2000 ◽  
Vol 13 (1) ◽  
pp. 62-71 ◽  
Author(s):  
János Györgyey ◽  
Danièle Vaubert ◽  
José I. Jiménez-Zurdo ◽  
Celine Charon ◽  
Liliane Troussard ◽  
...  
Keyword(s):  
Medicago Truncatula ◽  
Expressed Sequence Tags ◽  
Sinorhizobium Meliloti ◽  
Expression Patterns ◽  
Homology Search ◽  
Cdna Clones ◽  
Systematic Analysis ◽  
And Function ◽  
Nodulin Genes ◽  
Expressed Sequence

Systematic sequencing of expressed sequence tags (ESTs) can give a global picture of the assembly of genes involved in the development and function of organs. Indeterminate nodules representing different stages of the developmental program are especially suited to the study of organogenesis. With the vector λHybriZAP, a cDNA library was constructed from emerging nodules of Medicago truncatula induced by Sinorhizobium meliloti. The 5′ ends of 389 cDNA clones were sequenced, then these ESTs were analyzed both by sequence homology search and by studying their expression in roots and nodules. Two hundred fifty-six ESTs exhibited significant similarities to characterized data base entries and 40 of them represented 26 nodulin genes, while 133 had no similarity to sequences with known function. Only 60 out of the 389 cDNA clones corresponded to previously submitted M. truncatula EST sequences. For 117 cDNAs, reverse Northern (RNA) hybridization with root and nodule RNA probes revealed enhanced expression in the nodule, 48 clones are likely to code for novel nodulins, 33 cDNAs are clones of already known nodulin genes, and 36 clones exhibit similarity to other characterized genes. Thus, systematic analysis of the EST sequences and their expression patterns is a powerful way to identify nodule-specific and nodulation-related genes.

Tc8, a Tourist-like Transposon in Caenorhabditis elegans

Genetics ◽  
2001 ◽  
Vol 158 (3) ◽  
pp. 1081-1088 ◽  
Author(s):  
Quang Hien Le ◽  
Kime Turcotte ◽  
Thomas Bureau
Keyword(s):  
Caenorhabditis Elegans ◽  
Expressed Sequence Tags ◽  
Large Family ◽  
Insertion Sequences ◽  
Normal Plant ◽  
Nematode Caenorhabditis Elegans ◽  
Plant Genomes ◽  
Plant Genes ◽  
Expressed Sequence ◽  
Eukaryotic Genomes

Abstract Members of the Tourist family of miniature inverted-repeat transposable elements (MITEs) are very abundant among a wide variety of plants, are frequently found associated with normal plant genes, and thus are thought to be important players in the organization and evolution of plant genomes. In Arabidopsis, the recent discovery of a Tourist member harboring a putative transposase has shed new light on the mobility and evolution of MITEs. Here, we analyze a family of Tourist transposons endogenous to the genome of the nematode Caenorhabditis elegans (Bristol N2). One member of this large family is 7568 bp in length, harbors an ORF similar to the putative Tourist transposase from Arabidopsis, and is related to the IS5 family of bacterial insertion sequences (IS). Using database searches, we found expressed sequence tags (ESTs) similar to the putative Tourist transposases in plants, insects, and vertebrates. Taken together, our data suggest that Tourist-like and IS5-like transposons form a superfamily of potentially active elements ubiquitous to prokaryotic and eukaryotic genomes.

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