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Yalan Feng, Yongying Zhao, Ketao Wang, Yong Chun Li, Xiang Wang, Jun Yin
This study aimed to identify vernalization responsive genes in the winter wheat cultivar Jing841 by comparing the transcriptome data with that of a spring wheat cultivar Liaochun10. For each cultivar, seedlings before and after the vernalization treatment were sequenced by Solexa/Illumina sequencing. Genes differentially expressed after and before vernalization were identified as differentially expressed genes (DEGs) using false discovery rate (FDR) ≤ 0.001 and |log2 (fold change)|>1 as cutoffs. The Jing841-specific DEGs were screened and subjected to functional annotation using gene ontology (GO) database...
December 2016: Journal of Genetics
Alice Tadiello, Sara Longhi, Marco Moretto, Alberto Ferrarini, Paola Tononi, Brian Farneti, Nicola Busatto, Urska Vrhovsek, Alessandra Dal Molin, Carla Avanzato, Franco Biasioli, Luca Cappellin, Matthias Scholz, Riccardo Velasco, Livio Trainotti, Massimo Delledonne, Fabrizio Costa
Apple (Malus x domestica Borkh.) is a model species for studying the metabolic changes that occur at the onset of ripening in fruit crops, and the physiological mechanisms that are governed by the hormone ethylene. In this study, to dissect the climacteric interplay in apple, a multidisciplinary approach was employed. To this end, a comprehensive analysis of gene expression together with the investigation of several physiological entities (texture, volatilome and content of polyphenolic compounds) was performed throughout fruit development and ripening...
December 2016: Plant Journal: for Cell and Molecular Biology
Qing Li, Hyekyung Yang, Xiujuan Peng, Dong Guo, Zhongqi Dong, James E Polli, Yan Shu
The recently identified ischemia/reperfusion-inducible protein (IRIP) has been reported to negatively modulate the activities of several transporters in cell culture systems. The goal of this study is to determine whether IRIP regulates the activities of OCT1 and MATE1, and hence the disposition in vivo of their substrate metformin, a therapeutic drug for diabetes and other obesity-related syndromes. In the uptake studies in the human embryonic kidney 293 cells overexpressing IRIP with and without OCT1 or MATE1, IRIP overexpression was found to significantly inhibit the uptake of 1-methyl-4-phenylpyridinium mediated by OCT1 or MATE1...
July 1, 2013: Molecular Pharmaceutics
Chuan Li, Heidi Rudi, Eric J Stockinger, Hongmei Cheng, Moju Cao, Samuel E Fox, Todd C Mockler, Bjørge Westereng, Siri Fjellheim, Odd Arne Rognli, Simen R Sandve
BACKGROUND: Little is known about the potential of Brachypodium distachyon as a model for low temperature stress responses in Pooideae. The ice recrystallization inhibition protein (IRIP) genes, fructosyltransferase (FST) genes, and many C-repeat binding factor (CBF) genes are Pooideae specific and important in low temperature responses. Here we used comparative analyses to study conservation and evolution of these gene families in B. distachyon to better understand its potential as a model species for agriculturally important temperate grasses...
2012: BMC Plant Biology
Orinda Chew, Suzanne Lelean, Ulrik P John, German C Spangenberg
The cryophilic Antarctic hair grass, Deschampsia antarctica E. Desv., one of two higher plants indigenous to Antarctica, represents a unique resource for the study of freeze tolerance mechanisms. We have previously characterized a multi-gene family in D. antarctica encoding ice recrystallization inhibition proteins (IRIPs) whose transcript levels are responsive to cold acclimation, and whose products confer ice recrystallization inhibition (RI) activity that can account for activity seen in cold acclimated plants...
April 2012: Plant, Cell & Environment
Maodi Hu, Yunhong Wang, Zhaoxiang Zhang, De Zhang
This paper proposes a supervised modeling approach for gait-based gender classification. Different from traditional temporal modeling methods, male and female gait traits are competitively learned by the addition of gender labels. Shape appearance and temporal dynamics of both genders are integrated into a sequential model called mixed conditional random field (CRF) (MCRF), which provides an open framework applicable to various spatiotemporal features. In this paper, for the spatial part, pyramids of fitting coefficients are used to generate the gait shape descriptors; for the temporal part, neighborhood-preserving embeddings are clustered to allocate the stance indexes over gait cycles...
October 2011: IEEE Transactions on Systems, Man, and Cybernetics. Part B, Cybernetics
Christoph Sauvant, Reinhard Schneider, Hildegard Holzinger, Sylvia Renker, Christoph Wanner, Michael Gekle
Ischemic acute kidney injury (iAKI) is a common event in organ transplantation and may occur during severe surgery. To gain mechanistic insights into ischemia-induced alterations at the level of proximal tubule cells we set up an in vitro model of ischemia and reperfusion using the rat proximal tubule cell line NRK-52E. In this particular model we simultaneously applied acidosis, hypoxia and aglycemia together for 2h, using low volume buffer systems and a hypoxia chamber. Thereafter reperfusion was mimicked by subsequently culturing the cells for up to 48h under standard conditions...
2009: Cellular Physiology and Biochemistry
Olga Prokopenko, Oleg Mirochnitchenko
Human ischemia-reperfusion-inducible protein (hIRIP) or hYrdC belongs to the SUA5/YrdC/YciO protein family and affects activity of a variety of cellular transporters. We observed that overexpression of wild-type or dominant-negative mutant of hIRIP protein affects the cellular sensitivity to anticancer drugs with different mechanisms of toxicity. Here we investigated in detail the effect of hIRIP on cell sensitivity to doxorubicin and show that hIRIP inhibits the drug efflux. Multidrug-resistant P-glycoprotein was identified as one of the target transporters...
May 2009: American Journal of Physiology. Cell Physiology
Ulrik P John, Renatam M Polotnianka, Kailayapillai A Sivakumaran, Orinda Chew, Leanne Mackin, Micheal J Kuiper, Jonathan P Talbot, Gregory D Nugent, Julie Mautord, Gustavo E Schrauf, German C Spangenberg
Antarctic hair grass (Deschampsia antarctica E. Desv.), the only grass indigenous to Antarctica, has well-developed freezing tolerance, strongly induced by cold acclimation. Here, we show that in response to low temperatures, D. antarctica expresses potent recrystallization inhibition (RI) activity that, inhibits the growth of small ice crystals into potentially damaging large ones, is proteinaceous and localized to the apoplasm. A gene family from D. antarctica encoding putative homologs of an ice recrystallization inhibition protein (IRIP) has been isolated and characterized...
April 2009: Plant, Cell & Environment
Friedrich Teuscher, Karl W Broman
Recombinant inbred lines (RIL) derived from multiple inbred strains can serve as a powerful resource for the genetic dissection of complex traits. The use of such multiple-strain RIL requires a detailed knowledge of the haplotype structure in such lines. Broman (2005) derived the two- and three-point haplotype probabilities for 2(n)-way RIL; the former required hefty computation to infer the symbolic results, and the latter were strictly numerical. We describe a simpler approach for the calculation of these probabilities, which allowed us to derive the symbolic form of the three-point haplotype probabilities...
March 2007: Genetics
Wei Jiang, Olga Prokopenko, Lawrence Wong, Masayori Inouye, Oleg Mirochnitchenko
We report the identification and characterization of a new ischemia/reperfusion-inducible protein (IRIP), which belongs to the SUA5/YrdC/YciO protein family. IRIP cDNA was isolated in a differential display analysis of an ischemia/reperfusion-treated kidney RNA sample. Mouse IRIP mRNA was expressed in all tissues tested, the highest level being in the testis, secretory, and endocrine organs. Besides ischemia/reperfusion, endotoxemia also activated the expression of IRIP in the liver, lung, and spleen. The transporter regulator RS1 was identified as an IRIP-interacting protein in yeast two-hybrid screening...
August 2005: Molecular and Cellular Biology
A N Faria, F F Ribeiro Filho, N E Kohlmann, S R Gouvea Ferreira, M T Zanella
OBJECTIVE: The objective of this study is to assess the effects of sibutramine on body weight, body fat distribution, insulin resistance, plasma leptin, lipid profile and blood pressure profiles in hypertensive obese patients. METHODS: Eighty-six central obese hypertensive patients (BMI = 39 +/- 5 kg/m(2), 84% of women, 48 +/- 8.5 years old) were placed on a hypocaloric diet and placebo therapy for 4 weeks. They were then randomized to receive sibutramine (10 mg) or placebo for 24 weeks...
May 2005: Diabetes, Obesity & Metabolism
F Teuscher, V Guiard, P E Rudolph, G A Brockmann
The generation of special crosses between different inbred lines such as recombinant inbred strains (RIS) and intermated recombinant inbred populations (IRIP) is being used to improve the power of QTL detection techniques, in particular fine mapping. These approaches acknowledge the fact that recombination of linked loci increases with every generation, caused by the accumulation of crossovers appearing between the loci at each meiosis. This leads to an expansion of the map distance between the loci. While the amount of the map expansion of RIS and IRIP is known for infinite inbred generations, it is not known for finite numbers of generations...
June 2005: Genetics
Frank Vandenbussche, Willy J Peumans, Stijn Desmyter, Paul Proost, Marialibera Ciani, Els J M Van Damme
The antiviral activity of the type-2 ribosome-inactivating protein (RIP) IRAb from Iris was analyzed by expressing IRAb in tobacco (Nicotiana tabacum L. cv. Samsun NN) plants and challenging the transgenic plants with tobacco mosaic virus (TMV). Although constitutive expression of IRAb resulted in an aberrant phenotype, the plants were fertile. Transgenic tobacco lines expressing IRAb showed a dose-dependent enhanced resistance against TMV infection but the level of protection was markedly lower than in plants expressing IRIP, the type-1 RIP from Iris that closely resembles the A-chain of IRAb...
December 2004: Planta
Stijn Desmyter, Frank Vandenbussche, Qiang Hao, Paul Proost, Willy J Peumans, Els J M Van Damme
To study the in planta antiviral activity of a type-1 ribosome-inactivating protein from iris bulbs, called IRIP, Nicotiana tabacum cv. Samsun NN was transformed with the IRIP sequence expressed under the control of the 35S cauliflower mosaic virus promoter. Molecular analysis of the transgenic plants and characterization of the purified protein revealed that the recombinant IRIP from tobacco leaves has the same molecular structure and RNA N-glycosidase activity as the native protein from iris bulbs. The tobacco transformants show no apparent phenotypic side effects indicating that ectopically expressed IRIP is not cytotoxic for tobacco cells...
March 2003: Plant Molecular Biology
Q Hao, W J Peumans, E J Van Damme
The capacity of IRIP, a type-1 ribosome-inactivating protein (RIP) isolated from the bulbs of Iris hollandica, to bind specific DNA sequences from a mixture of approx. 200 bp (average length) fragments of total genomic DNA from Iris genome was studied. Fragments that were preferentially bound by IRIP were enriched by several cycles of affinity binding and PCR, and were cloned and sequenced. The selected DNA fragments do not share conserved sequences, indicating that IRIP does not bind DNA fragments in a strictly sequence-specific manner...
August 1, 2001: Biochemical Journal
Q Hao, E J Van Damme, B Hause, A Barre, Y Chen, P Rougé, W J Peumans
Two closely related lectins from bulbs of the Dutch iris (Iris hollandica var. Professor Blaauw) have been isolated and cloned. Both lectins, called Iris agglutinin b and Iris agglutinin r, possess N-glycosidase activity and share a high sequence similarity with previously described type 2 ribosome-inactivating proteins (RIP). However, these lectins show only 57% to 59% sequence identity to a previously characterized type 1 RIP from iris, called IRIP. The identification of the iris lectins as type 2 RIP provides unequivocal evidence for the simultaneous occurrence of type 1 and type 2 RIP in iris bulbs and allowed a detailed comparison of type 1 and type 2 RIP from a single plant, which provides further insight into the molecular evolution of RIP...
February 2001: Plant Physiology
Q Hao, E J Van Damme, A Barre, A Sillen, P Rougé, Y Engelborghs, W J Peumans
IRIP is a type-1 ribosome-inactivating protein isolated from the bulbs of Iris hollandica. It is one of the few type-1 RIPs that contain Cys residue(s) in their primary sequence. IRIP contains a single Cys residue at position 242. Although IRIP is thought to be a monomeric protein, SDS-PAGE indicates that part of the IRIP molecules can exist as disulphide bridge-linked dimers. Probing of the reactivity of the unique Cys residue by 5, 5'-dithiobis(2-nitrobenzoic acid) indicates that Cys(242) in IRIP is free but is only partially accessible to modifiers...
August 28, 2000: Biochemical and Biophysical Research Communications
S L Bernhard, M Better, D M Fishwild, J A Lane, A E Orme, D A Garrison, C A Birr, S P Lei, S F Carroll
Antibody immunoconjugates were made with native and recombinant forms of the type-I ribosome inactivating protein from barley (BRIP) and with three recombinant BRIP (rBRIP) analogs engineered to contain a unique cysteine residue near the C terminus (at amino acid 256, 270, or 277). rBRIP and all three cysteine analogs (rBRIPc256, rBRIPc270, and rBRIPc277) were produced in E. coli, with yields of soluble protein as high as 1 g/L, and were as active as native BRIP in inhibiting protein synthesis in vitro. Interestingly, the position of the engineered cysteine influenced not only the efficiency of conjugation to antibody but also the efficacy and disulfide bond stability of the immunoconjugates...
March 1994: Bioconjugate Chemistry
H Tsuchiya, T Onishi, H Mogami, M Iida
Lipid metabolism was studied in 16 acromegalic patients who all underwent transsphenoidal selective pituitary adenomectomy (SPA). Before the operation, their serum lipid levels correlated with none of the basal levels of serum growth hormone (GH), basal levels of plasma somatomedin-C (SM-C), fasting levels of plasma glucose (FPG), peak levels of plasma glucose (PGp) or basal and peak levels of serum immunoreactive insulin (IRIb and IRIp, resp.) in the oral glucose tolerance test (OGTT), and obesity indices...
December 1990: Endocrinologia Japonica
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