| 1. |
- Tuskan, G A, et al.
(författare)
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The genome of black cottonwood, Populus trichocarpa (Torr. & Gray).
- 2006
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Ingår i: Science. - : American Association for the Advancement of Science (AAAS). - 1095-9203 .- 0036-8075. ; 313:5793, s. 1596-604
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Tidskriftsartikel (refereegranskat)abstract
- We report the draft genome of the black cottonwood tree, Populus trichocarpa. Integration of shotgun sequence assembly with genetic mapping enabled chromosome-scale reconstruction of the genome. More than 45,000 putative protein-coding genes were identified. Analysis of the assembled genome revealed a whole-genome duplication event; about 8000 pairs of duplicated genes from that event survived in the Populus genome. A second, older duplication event is indistinguishably coincident with the divergence of the Populus and Arabidopsis lineages. Nucleotide substitution, tandem gene duplication, and gross chromosomal rearrangement appear to proceed substantially more slowly in Populus than in Arabidopsis. Populus has more protein-coding genes than Arabidopsis, ranging on average from 1.4 to 1.6 putative Populus homologs for each Arabidopsis gene. However, the relative frequency of protein domains in the two genomes is similar. Overrepresented exceptions in Populus include genes associated with lignocellulosic wall biosynthesis, meristem development, disease resistance, and metabolite transport.
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| 2. |
- Arora, D, et al.
(författare)
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Protein tyrosine phosphatase DEP-1 controls receptor tyrosine kinase FLT3 signaling
- 2011
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Ingår i: Journal of Biological Chemistry. - 1083-351X. ; 286:13, s. 10918-10929
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Tidskriftsartikel (refereegranskat)abstract
- Fms-like tyrosine kinase 3 (FLT3) plays an important role in hematopoietic differentiation and constitutively active FLT3 mutant proteins contribute to the development of acute myeloid leukemia (AML). Little is known about the protein tyrosine phosphatases (PTP) affecting the signaling activity of FLT3. To identify such PTP, myeloid cells expressing wild type FLT3 were infected with a panel of lentiviral pseudotypes carrying shRNA expression cassettes targeting different PTP. Out of 20 PTP tested, expressed in hematopoietic cells or presumed to be involved in oncogenesis or tumor suppression, DEP-1 (PTPRJ) was identified as a PTP negatively regulating FLT3 phosphorylation and signaling. Stable myeloid cell lines with strongly reduced DEP-1 levels showed site-selective hyperphosphorylation of FLT3. Similarly, acute depletion of DEP-1 in the human AML cell line THP-1 caused elevated FLT3 phosphorylation. Particularly, the sites pY589, pY591, and pY842 involved in the FLT3 ligand (FL) -mediated activation of FLT3 were hyperphosphorylated most. Enhanced FLT3 phosphorylation in DEP-1 depleted cells was accompanied by enhanced FLT3-dependent activation of ERK and cell proliferation. Overexpression of DEP-1 resulted in opposite effects on FL-mediated receptor phosphorylation and signaling activity. Furthermore, FL-mediated colony formation in methylcellulose of 32D cells expressing FLT3 was induced in response to shRNA-mediated DEP-1 knockdown. This transforming effect of DEP-1 knockdown was consistent with a moderately increased activation of STAT5 upon FL-stimulation, but did not translate into myeloproliferative disease formation in the 32D-C3H/HeJ mouse model. The data indicate that DEP-1 is negatively regulating FLT3 signaling activity and its loss may contribute to, but is not sufficient for leukemogenic cell transformation.
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