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Complete List of Candidate Genes for Qtls Found for Forage Digestibility Traits in a MAGIC Population Tr

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Suplementary Table S1: Complete list of candidate genes for QTLs found for forage digestibility traits in a MAGIC population Traita: DOM SNPb: QTLc: qDOM_1_1 Bind: 1.07 S1_206738618 Genee Gene Functionf Zm00001d031988 Transmembrane 9 superfamily member 9 Zm00001d031989 hypothetical protein Zm00001d031990 Protein FATTY ACID EXPORT 1 chloroplastic Zm00001d031991 hypothetical protein Zm00001d031992 iddp1 - indeterminate domain p1 Zm00001d031993 Rhamnogalacturonate lyase family protein Zm00001d031994 hypothetical protein Zm00001d031995 dihydroneopterin aldolase Zm00001d031996 WD repeat-containing protein DWA2 Zm00001d031997 NAD(P)-binding Rossmann-fold superfamily protein Zm00001d032000 hypothetical protein Zm00001d032003 hypothetical protein Zm00001d032004 hypothetical protein Zm00001d032005 hypothetical protein Zm00001d032007 Zinc finger CCCH domain-containing protein 4 Zm00001d032008 NEP1-interacting protein-like 1 Zm00001d032009 Protein TIFY 6B, partial Zm00001d032010 26S proteasome non-ATPase regulatory subunit 3 homolog A Zm00001d032011 Stigma-specific STIG1-like protein 4 Zm00001d032012 hypothetical protein Zm00001d032013 hypothetical protein Zm00001d032015 Aquaporin SIP1-1, partial Zm00001d032016 hypothetical protein Zm00001d032019 acpt1 - acyl carrier protein1) Zm00001d032022 Beta-galactosidase Zm00001d032023 hypothetical protein Zm00001d032024 myb38 - myb transcription factor38 Zm00001d032025 Casein kinase II subunit alpha-4 chloroplastic Zm00001d032026 RNA-binding (RRM/RBD/RNP motifs) family protein Zm00001d032027 THAUMATIN-LIKE PROTEIN 1 Zm00001d032028 ARO1-like protein 1 Zm00001d032029 HEC/Ndc80p family protein Zm00001d032030 Chaperone protein dnaJ 11 chloroplastic Zm00001d032031 ER lumen protein retaining receptor family protein Zm00001d032032 myb167 - MYB-transcription factor 167 Suplementary Table S1: Complete list of candidate genes for QTLs found for forage digestibility traits in a MAGIC population Zm00001d032035 cytochrome P450 family 706 subfamily A polypeptide 5 Zm00001d032036 putative carboxylesterase 8 Zm00001d032040 srs1 - SHI/STY (SRS)-transcription factor 1 Traita : DOM SNPb: QTLc : qDOM_3_1 Bind : 3.05 S3_135508643 Genee Gene Functionf Zm00001d041727 40S ribosomal protein S29 Zm00001d041728 hypothetical protein Zm00001d041729 hypothetical protein Zm00001d041730 hypothetical protein Zm00001d041731 hypothetical protein Zm00001d041732 hypothetical protein Zm00001d041733 Peroxisomal membrane 22 kDa Zm00001d041734 hypothetical protein Zm00001d041735 hypothetical protein Zm00001d041738 late embryogenesis abundant protein Zm00001d041741 Cytochrome P450 71D7 Zm00001d041742 hypothetical protein Zm00001d041743 hypothetical protein Zm00001d041744 Protein cornichon homolog 1 Zm00001d041745 hypothetical protein Zm00001d041747 hypothetical protein Zm00001d041748 Ureide permease 5 Zm00001d041750 Glycine-rich RNA-binding protein 3 mitochondrial Zm00001d041751 hypothetical protein Zm00001d041752 ARF guanine-nucleotide exchange factor GNL2 Zm00001d041753 SSXT protein Zm00001d041755 hypothetical protein Zm00001d041756 60S ribosomal protein L6-3 Zm00001d041758 Translation initiation factor eIF-2B alpha subunit Zm00001d041759 Transducin/WD40 repeat-like superfamily protein Zm00001d041760 40S ribosomal protein S9-2 Zm00001d041762 Putative pentatricopeptide repeat- containing protein Zm00001d041763 UDP-glucose:p-hydroxymandelonitrile- O-glucosyltransferase Zm00001d041766 Transcription initiation factor TFIID subunit 8 Zm00001d041767 alf4 - Alfin-like-transcription factor 4 Suplementary Table S1: Complete list of candidate genes for QTLs found for forage digestibility traits in a MAGIC population Zm00001d041768 NEP-interacting protein 1 Zm00001d041769 Serine carboxypeptidase-like 20 Zm00001d041770 hypothetical protein Traita: DOM SNPb: S5_21577347, QTLc: qDOM_5_1 Bind: 5.09 S5_21577373 Genee Gene Functionf Zm00001d013812 Polyadenylate-binding protein RBP45C Zm00001d013814 Pentatricopeptide repeat-containing protein Zm00001d013815 Condensin-2 complex subunit H2 Zm00001d013816 DTW domain containing protein Zm00001d013817 Protein FATTY ACID EXPORT 5 Zm00001d013818 Tryptophan N-monooxygenase 2 Zm00001d013819 Galactose mutarotase-like superfamily protein Zm00001d013820 hypothetical protein Zm00001d013821 hypothetical protein Zm00001d013822 Putative disease resistance RPP13-like protein 1 Zm00001d013823 putative L-gulonolactone oxidase 6 Zm00001d013824 F-box domain containing protein expressed Zm00001d013825 F-box domain containing protein expressed Zm00001d013827 mybr99 - MYB-related-transcription factor 99 Zm00001d013828 Switch 2 Zm00001d013829 embryo defective 2016 Zm00001d013830 cytochrome P450 family 76 subfamily C polypeptide 7 Zm00001d013832 hypothetical protein Zm00001d013834 AAA-ATPase Zm00001d013836 Protein kinase superfamily protein Zm00001d013838 Tetratricopeptide repeat (TPR)-like superfamily protein Zm00001d013839 Cytochrome b5 isoform E Zm00001d013840 Ypt/Rab-GAP domain of gyp1p superfamily protein Zm00001d013841 hypothetical protein Zm00001d013842 Heat shock 70 kDa protein Zm00001d013844 methionine γ-lyase Zm00001d013845 E2F transcription factor-like E2FE Zm00001d013847 fringe-related protein Zm00001d013849 thx19 - Trihelix-transcription factor 19 Traita: DOM SNPb: S8_81881327 QTLc: qDOM_8_1 Bind: 8.03 Genee Gene Functionf Suplementary Table S1: Complete list of candidate genes for QTLs found for forage digestibility traits in a MAGIC population Zm00001d009813 Nucleotide/sugar transporter family protein Zm00001d009814 Putative leucine-rich repeat receptor-like protein kinase family protein Zm00001d009815 Cactin Zm00001d009816 hypothetical protein Zm00001d009820 hypothetical protein Zm00001d009821 Serine/arginine-rich-splicing factor SR34 Zm00001d009823 lbd35 - LBD-transcription factor 35 Zm00001d009824 OSJNBa0059D20.8-like protein Zm00001d009825 hypothetical protein Zm00001d009826 hypothetical protein Zm00001d009827 Cold-regulated 413 inner membrane protein 2 chloroplastic Zm00001d009828 Heat shock 70 kDa protein 14, partial Zm00001d009829 hypothetical protein Zm00001d009830 hypothetical protein Traita: DOM SNPb: QTLc: qDOM_8_2 Bind: 8.03 S8_100951060, S8_101210332 Genee Gene Functionf Zm00001d010155 Di-glucose binding with Kinesin motor domain-like protein, partial Zm00001d010157 glucose-1-phosphate adenylyltransferase Zm00001d010158 hypothetical protein Zm00001d010159 Actin-1 Zm00001d010161 Radical SAM superfamily protein Zm00001d010162 Histone deacetylase 8 Zm00001d010163 hypothetical protein Zm00001d010166 hypothetical protein Zm00001d010168 bzip116 - bZIP-transcription factor 116 Zm00001d010169 Cysteine-rich receptor-like protein kinase 40 Zm00001d010170 hypothetical protein Zm00001d010171 Soluble inorganic pyrophosphatase 1 Zm00001d010172 fructose-1,6-bisphosphatase Zm00001d010173 Polypyrimidine tract-binding protein homolog 3 Zm00001d010174 Protein LIKE COV 2 Zm00001d010175 ereb113 - AP2-EREBP-transcription factor 113 Zm00001d010176 hypothetical protein Zm00001d010177 Retrotransposon-like protein Zm00001d010178 Protein kinase superfamily protein Zm00001d010179 Putative subtilase family protein Zm00001d010180 (3R)-3-hydroxybutanoyl-[acyl-carrier- protein] hydratase Suplementary Table S1: Complete list of candidate genes for QTLs found for forage digestibility traits in a MAGIC population Zm00001d010181 hypothetical protein Zm00001d010182 Cyclin-A1-1 Zm00001d010183 hypothetical protein Zm00001d010184 hypothetical protein Zm00001d010185 hypothetical protein Zm00001d010189 DUF1682 family protein Zm00001d010190 glutamate-oxaloacetate transaminase5 Zm00001d010191 hypothetical protein Zm00001d010192 hagtf34 - GNAT-transcription factor 34 Zm00001d010195 Protein NRT1/ PTR FAMILY 5.10 Zm00001d010196 Asparagine synthetase [glutamine- hydrolyzing] 3 Zm00001d010197 amidophosphoribosyl transferase Zm00001d010198 Zm00001d010199 hypothetical protein Zm00001d010200 2'-deoxyadenosine kinase Zm00001d010201 myb25 - MYB-transcription factor 25 Zm00001d010202 Phosphoribosylanthranilate transferase, mRNA Zm00001d010203 hypothetical protein Zm00001d010204 alpha/beta-Hydrolases superfamily protein Zm00001d010205 Putative patellin family protein Traita: NDF SNPb: QTLc: qNDF_1_1 Bind: 1.08 S1_249307680 Genee Gene Functionf Zm00001d033157 Pleckstrin homology (PH) domain- containing protein Zm00001d033158 jmj22 - JUMONJI-transcription factor 22 Zm00001d033159 DEK domain-containing chromatin associated protein Zm00001d033160 Transposon protein Zm00001d033164 Leucine-rich repeat protein kinase family protein Zm00001d033165 hypothetical protein Zm00001d033166 gras16 - GRAS-transcription factor 16 Zm00001d033167 ACT domain-containing protein ACR4 Zm00001d033168 hypothetical protein Zm00001d033169 Adenine nucleotide alpha hydrolase-like superfamily protein Zm00001d033170 putative E3 ubiquitin-protein ligase RHB1A Zm00001d033171 Thioredoxin superfamily protein, partial Zm00001d033172 Regulator of chromosome condensation (RCC1) family protein Zm00001d033174 gap1 - Golgi associated protein homolog Suplementary Table S1: Complete list of candidate genes for QTLs found for forage digestibility traits in a MAGIC population Zm00001d033175 Pentatricopeptide repeat (PPR) superfamily protein Zm00001d033176 hypothetical protein Zm00001d033177 hypothetical protein Zm00001d033180 brd1 - brassinosteroid-deficient dwarf1 Zm00001d033181 fructokinase-like 2, chloroplastic Zm00001d033186 Mitochondrial import receptor subunit TOM5-like protein Zm00001d033187 glycerophosphoryl diester phosphodiesterase, periplasmic Zm00001d033188 UDP-glucose 6-dehydrogenase
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    Isolation and Characterization of the Prolyl Aminopeptidase Gene (Pap) from Aeromonas Sobria: Comparison with the Bacillus Coagulans Enzyme1

    J. Biochem. 116, 818-825 (1994) Isolation and Characterization of the Prolyl Aminopeptidase Gene (pap) from Aeromonas sobria: Comparison with the Bacillus coagulans Enzyme1 Ana Kitazono,* Atsuko Kitano,* Daisuke Tsuru,•õ and Tadashi Yoshimoto*,2 *School of Pharmaceutical Sciences , Nagasaki University, 1-14 Bunkyo-machi, Nagasaki, Nagasaki 852; and •õ Department of Applied Microbiology, Kumamoto Institute of Technology, 4-22-1 Ikeda, Kumamoto, Kumamoto 860 Received for publication, May 16, 1994 The Aeromonas sobria pap gene encoding prolyl aminopeptidase (PAP) was cloned. It consists of 425 codons and encodes a homotetrameric enzyme of 205kDa. The purified enzyme showed an almost absolute specificity for amino-terminal proline. Proline and hydroxyproline residues from many peptide and amide substrates could be easily removed, while no activity was detected for substrates having other amino terminals. The enzyme was very similar to that from Bacillus coagulans in many aspects, such as the strong inhibition caused by PCMB and the weak or no inhibition caused by DFP and chelators, respectively. However, these enzymes show only 15% identity in their amino acid sequences. Differences were also observed in their molecular weight, stability and activity toward some peptide substrates. When aligning the deduced amino acid sequence with known sequences from other microorganisms, conserved sequences were found at the amino-terminal region; the significance of these conserved regions is discussed. Based on the results of this work, and on the studies available to date, the occurrence of at least two types of PAPs is postulated. One group would be formed by the Bacillus, Neisseria, and Lactobacillus enzymes, and the other by enzymes such as the Aeromonas PAP.
  • P-Glycoprotein, CYP3A, and Plasma Carboxylesterase Determine Brain and Blood Disposition of the Mtor Inhibitor Everolimus (Afinitor) in Mice

    P-Glycoprotein, CYP3A, and Plasma Carboxylesterase Determine Brain and Blood Disposition of the Mtor Inhibitor Everolimus (Afinitor) in Mice

    Published OnlineFirst April 11, 2014; DOI: 10.1158/1078-0432.CCR-13-1759 Clinical Cancer Cancer Therapy: Preclinical Research P-Glycoprotein, CYP3A, and Plasma Carboxylesterase Determine Brain and Blood Disposition of the mTOR Inhibitor Everolimus (Afinitor) in Mice Seng Chuan Tang1, Rolf W. Sparidans3, Ka Lei Cheung4, Tatsuki Fukami5, Selvi Durmus1, Els Wagenaar1, Tsuyoshi Yokoi5, Bart J.M. van Vlijmen4, Jos H. Beijnen2,3, and Alfred H. Schinkel1 Abstract Purpose: To clarify the role of ABCB1, ABCG2, and CYP3A in blood and brain exposure of everolimus using knockout mouse models. À À À À À À À À Experimental Design: We used wild-type, Abcb1a/1b / , Abcg2 / , Abcb1a/1b;Abcg2 / , and Cyp3a / mice to study everolimus oral bioavailability and brain accumulation. Results: Following everolimus administration, brain concentrations and brain-to-liver ratios were À À À À À À substantially increased in Abcb1a/1b / and Abcb1a/1b;Abcg2 / , but not Abcg2 / mice. The fraction of everolimus located in the plasma compartment was highly increased in all knockout strains. In vitro, everolimus was rapidly degraded in wild-type but not knockout plasma. Carboxylesterase 1c (Ces1c), a plasma carboxylesterase gene, was highly upregulated (80-fold) in the liver of knockout mice relative to wild-type mice, and plasma Ces1c likely protected everolimus from degradation by binding and stabilizing it. This binding was prevented by preincubation with the carboxylesterase inhibitor BNPP. In vivo knockdown experiments confirmed the involvement of Ces1c in everolimus stabilization. Everolimus also markedly inhibited the hydrolysis of irinotecan and p-nitrophenyl acetate by mouse plasma carboxylesterase À À and recombinant human CES2, respectively.