Journal: GCB Bioenergy

Article Title: Agave for tequila and biofuels: an economic assessment and potential opportunities

doi: 10.1111/j.1757-1707.2010.01084.x

Figure Lengend Snippet: Fig. 1 Area planted under Agave tequilana, mescal feedstocks and henequen in thousands of hectares 1995–2008. Source: SIAP- SAGARPA (2010). Note: Henequen area corresponds only to Yucatan.

Article Snippet: In the next section, we provide further details for each of the three species. r 2010 Blackwell Publishing Ltd, GCB Bioenergy, 3, 43–57 Agave tequilana and tequila production According to the Protected Geographic Status for Tequila (Denominación de Origen Tequila; DOT), tequila ‘100% Agave’ must be produced from A. tequilana Weber Blue only in the state of Jalisco and some municipalities in the states of Guanajuato, Nayarit, Michoacán and Tamaulipas (Consejo-Regulador-del-Tequila, 2010) (see Fig. 2).

Techniques:

Journal: GCB Bioenergy

Article Title: Agave for tequila and biofuels: an economic assessment and potential opportunities

doi: 10.1111/j.1757-1707.2010.01084.x

Figure Lengend Snippet: Fig. 3 Yields (Mg ha1) of Agave tequilana in Jalisco, Mexico in 2008. Note: These yields are obtained with a 5–7 year life cycle of the plant. Yields (Mg ha1 yr1) will vary depending on share of the land harvested and rotated each year. Source: SIAP-SAGAR- PA (2010). Map by the authors.

Article Snippet: In the next section, we provide further details for each of the three species. r 2010 Blackwell Publishing Ltd, GCB Bioenergy, 3, 43–57 Agave tequilana and tequila production According to the Protected Geographic Status for Tequila (Denominación de Origen Tequila; DOT), tequila ‘100% Agave’ must be produced from A. tequilana Weber Blue only in the state of Jalisco and some municipalities in the states of Guanajuato, Nayarit, Michoacán and Tamaulipas (Consejo-Regulador-del-Tequila, 2010) (see Fig. 2).

Techniques:

Journal: GCB Bioenergy

Article Title: Agave for tequila and biofuels: an economic assessment and potential opportunities

doi: 10.1111/j.1757-1707.2010.01084.x

Figure Lengend Snippet: Fig. 4 Value and level of production of Agave tequilana in Mexico 1995–2008. Source: SIAP-SAGARPA (2010). Value is in 2007 prices and converted to US$ using 2007 exchange rate of US$ 1 to MXN10.9 (Banco-de-Mexico, 2010).

Article Snippet: In the next section, we provide further details for each of the three species. r 2010 Blackwell Publishing Ltd, GCB Bioenergy, 3, 43–57 Agave tequilana and tequila production According to the Protected Geographic Status for Tequila (Denominación de Origen Tequila; DOT), tequila ‘100% Agave’ must be produced from A. tequilana Weber Blue only in the state of Jalisco and some municipalities in the states of Guanajuato, Nayarit, Michoacán and Tamaulipas (Consejo-Regulador-del-Tequila, 2010) (see Fig. 2).

Techniques:

Journal: GCB Bioenergy

Article Title: Agave for tequila and biofuels: an economic assessment and potential opportunities

doi: 10.1111/j.1757-1707.2010.01084.x

Figure Lengend Snippet: Fig. 5 Yields of Agave tequilana and mescal feedstocks in Mexico 1995–2008. Source: SIAP-SAGARPA (2010).

Article Snippet: In the next section, we provide further details for each of the three species. r 2010 Blackwell Publishing Ltd, GCB Bioenergy, 3, 43–57 Agave tequilana and tequila production According to the Protected Geographic Status for Tequila (Denominación de Origen Tequila; DOT), tequila ‘100% Agave’ must be produced from A. tequilana Weber Blue only in the state of Jalisco and some municipalities in the states of Guanajuato, Nayarit, Michoacán and Tamaulipas (Consejo-Regulador-del-Tequila, 2010) (see Fig. 2).

Techniques:

Journal: PLoS ONE

Article Title: Cellular Expression Profile for Interstitial Cells of Cajal in Bladder - A Cell Often Misidentified as Myocyte or Myofibroblast

doi: 10.1371/journal.pone.0048897

Figure Lengend Snippet: Cryosections of mouse bladders were labeled with antibodies to connexin 43 (A. green), NTPDase2 (B. red) and Topro-3 to label nuclei (B. blue). Color merged panels are shown on the right (C). Merged signals of NTPDase2 and connexin 43 are shown as yellow (C). White arrows indicate representative NTPDase2/connexin 43 co-localization. White scale bars = 10 µm.

Article Snippet: Affinity-purified polyclonal rabbit anti-c-kit antibody (A0501), affinity-purified polyclonal rabbit anti-connexin 43 antibody (C0158), affinity-purified polyclonal rabbit anti-vimentin antibody (C0390), affinity-purified polyclonal rabbit anti-desmin antibody (C0171), affinity-purified polyclonal rabbit anti-PDGFβ antibody (B7194), affinity-purified polyclonal rabbit anti-merlin antibody (A8046) were purchased from Assay Biotechnology (Sunnyvale, CA).

Techniques: Labeling

Journal: PLoS ONE

Article Title: Cellular Expression Profile for Interstitial Cells of Cajal in Bladder - A Cell Often Misidentified as Myocyte or Myofibroblast

doi: 10.1371/journal.pone.0048897

Figure Lengend Snippet: Summary of expression profile of molecular markers in bladder ICC.

Article Snippet: Affinity-purified polyclonal rabbit anti-c-kit antibody (A0501), affinity-purified polyclonal rabbit anti-connexin 43 antibody (C0158), affinity-purified polyclonal rabbit anti-vimentin antibody (C0390), affinity-purified polyclonal rabbit anti-desmin antibody (C0171), affinity-purified polyclonal rabbit anti-PDGFβ antibody (B7194), affinity-purified polyclonal rabbit anti-merlin antibody (A8046) were purchased from Assay Biotechnology (Sunnyvale, CA).

Techniques: Expressing

Journal: The Journal of Biological Chemistry

Article Title: Heat Shock-induced Phosphorylation of TAR DNA-binding Protein 43 (TDP-43) by MAPK/ERK Kinase Regulates TDP-43 Function *

doi: 10.1074/jbc.M116.753913

Figure Lengend Snippet: Heat shock induces TDP-43 phosphorylation at Thr-153 and Tyr-155. A, schematic representation highlighting TDP-43 domains linked to protein activity and structure: nuclear localization sequence (NLS) at the N terminus, RRM 1 and 2, and the low complexity sequence at the C terminus. Threonine 153 and tyrosine 155 (red) are highlighted in the RRM1 insert. B, ribbon and surface representation of TDP-43 RRM1–2 fragment (amino acids 102–269) bound to a UG-rich RNA molecule (gray) based on an NMR structure of the complex (36). Thr-153 and Tyr-155 are highlighted in red. C, immunoblots of SH-SY5Y cells exposed to heat shock, 43 °C for 30 min; treated with sodium arsenite, 0.5 mm for 1 h (NaAsn); H2O2, 100 μm for 5 h; hydroxyurea, 4 mm for 4 h (HU); and actinomycin D, 5 μg/ml for 3 h (Act D). D, immunoblots of increasing cell lysate derived from control and heat shock-treated SH-SY5Y cells. An antibody recognizing total, phospho-independent TDP-43 was used as control. Tubulin and GAPDH were used as loading control.

Article Snippet: The rabbit polyclonal antibodies recognizing p-T153/Y155 and p-Y155-TDP-43 were produced by 21st Century Biochemicals, MA.

Techniques: Activity Assay, Sequencing, Western Blot, Derivative Assay

Journal: The Journal of Biological Chemistry

Article Title: Heat Shock-induced Phosphorylation of TAR DNA-binding Protein 43 (TDP-43) by MAPK/ERK Kinase Regulates TDP-43 Function *

doi: 10.1074/jbc.M116.753913

Figure Lengend Snippet: Antibody p-T153/Y155-TDP-43 specifically detects heat shock-mediated TDP-43 phosphorylation. A, immunoblots of HeLa cells treated with TDP-43-specific and control siRNA to compare levels of p-T153/Y155-TDP-43 following heat shock stress. Error bars, S.D. n = 4. B, detection of the heat shock-associated signal in SH-SY5Y cell lysate with p-T153/Y155-TDP-43 antibody blocked with a TDP-43 peptide corresponding to the Thr-153/Tyr-155 region (amino acids 148–161) phosphorylated at Thr-153 and Tyr-155 (T153P/Y155P), or with the corresponding non-phosphorylated peptide, as control. Two concentrations of peptides were used low (L) and high (H), described under “Experimental Procedures.” C, p-T153/Y155-TDP-43 detection of control and λ-phosphatase-treated lysates from control and heat shock-treated SH-SY5Y cells.

Article Snippet: The rabbit polyclonal antibodies recognizing p-T153/Y155 and p-Y155-TDP-43 were produced by 21st Century Biochemicals, MA.

Techniques: Western Blot

Journal: The Journal of Biological Chemistry

Article Title: Heat Shock-induced Phosphorylation of TAR DNA-binding Protein 43 (TDP-43) by MAPK/ERK Kinase Regulates TDP-43 Function *

doi: 10.1074/jbc.M116.753913

Figure Lengend Snippet: p-T153/Y155-TDP-43 detects nucleolar localization of TDP-43 in the dense coil-like structures. A, fluorescence imaging of non-treated HeLa cells showing total TDP-43 and p-T153/Y155-TDP-43 localization. B, p-T153/Y155 colocalization with the nucleolar marker fibrillarin in HeLa and SH-SY5Y cells as seen by confocal microscopy. C, detection of p-T153/Y155 in HeLa cells upon heat shock compared with control-treated cells. Bars, 10 μm.

Article Snippet: The rabbit polyclonal antibodies recognizing p-T153/Y155 and p-Y155-TDP-43 were produced by 21st Century Biochemicals, MA.

Techniques: Fluorescence, Imaging, Marker, Confocal Microscopy

Journal: The Journal of Biological Chemistry

Article Title: Heat Shock-induced Phosphorylation of TAR DNA-binding Protein 43 (TDP-43) by MAPK/ERK Kinase Regulates TDP-43 Function *

doi: 10.1074/jbc.M116.753913

Figure Lengend Snippet: p-T153/Y155 is not associated with aggregation, stress granule recruitment, or clearance of TDP-43. A, fractionation of SH-SY5Y cells performed with control, heat shock-treated cells (43 °C for 30 min), and cells allowed to recover at 37 °C for 1 or 2 h (1 hr R, 2 hr R) following heat shock. Immunoblots of the total lysate (CL), RIPA (R), and urea (U) soluble fractions detecting p-T153/Y155 and total TDP-43. Equal volumes of total lysate and RIPA soluble fraction were loaded, whereas the urea fraction is 5-fold more concentrated. B, immunoblots of SH-SY5Y cells treated with the UPS inhibitor MG132 (20 μm for 5 h), heat shock (HS: 43 °C for 30 min), trehalose (100 mm for 24 h), thapsigargin (THP: 1 μm, 2 h), and serum starvation (24 h). C, fluorescence microscopy of control and heat shock-treated HeLa cells detecting p-T153/Y155 and a stress granule marker, TIAR. Arrows indicate TIAR-positive stress granules. D, control and MG132-treated HeLa cells (20 μm,5 h). Arrows indicate TDP-43 cytoplasmic aggregates detected with a phospho-independent antibody. Bars, 10 μm. E, control and trehalose (100 mm, 24 h) treated HeLa cells. Formation of autophagy vesicles (arrow, lower panels) visualized upon transfection with GFP-fused microtubule-associated protein 1A/1B-light chain 3 (LC3). Bars, 25 μm.

Article Snippet: The rabbit polyclonal antibodies recognizing p-T153/Y155 and p-Y155-TDP-43 were produced by 21st Century Biochemicals, MA.

Techniques: Fractionation, Western Blot, Fluorescence, Microscopy, Marker, Transfection

Journal: The Journal of Biological Chemistry

Article Title: Heat Shock-induced Phosphorylation of TAR DNA-binding Protein 43 (TDP-43) by MAPK/ERK Kinase Regulates TDP-43 Function *

doi: 10.1074/jbc.M116.753913

Figure Lengend Snippet: TDP-43 is specifically phosphorylated by MEK at Thr-153/Tyr-155. A, human TDP-43 amino acid sequence surrounding Thr-153 and Tyr-155 (underlined) aligned with the human ERK1 activation loop sequence where MEK phosphorylates at Thr-202 and Tyr-204 (underlined). B, immunoblots of heat shock and control treated HEK-293 and SH-SY5Y cells. The levels of phospho-independent proteins are shown and tubulin was used as loading control. C, SH-SY5Y cells treated with specific MEK inhibitors PD184352 (10 μm) and PD98059 (50 μm), and with a specific inhibitor of the downstream kinase ERK FR180204 (30 μm). Cells were exposed to heat shock following 1 h of inhibitor treatment. D, SH-SY5Y cells treated with the protein phosphatase PP1/2A inhibitor, okadaic acid (0.5 μm), combined with the MEK inhibitor PD184352 for 1 h before heat shock. E, p-T153/Y155 levels analyzed upon expression of the constitutively active GFP-MEK_DD mutant and a GFP control construct in SH-SY5Y cells in the absence of heat shock.

Article Snippet: The rabbit polyclonal antibodies recognizing p-T153/Y155 and p-Y155-TDP-43 were produced by 21st Century Biochemicals, MA.

Techniques: Sequencing, Activation Assay, Western Blot, Expressing, Mutagenesis, Construct

Journal: The Journal of Biological Chemistry

Article Title: Heat Shock-induced Phosphorylation of TAR DNA-binding Protein 43 (TDP-43) by MAPK/ERK Kinase Regulates TDP-43 Function *

doi: 10.1074/jbc.M116.753913

Figure Lengend Snippet: Phosphomimetic substitutions at Thr-153/Tyr-155 modulate TDP-43 activity. A, schematic representation of the CFTR exon 9 mini-gene cellular reporter of TDP-43 activity. Exons and intron regions are represented as boxes and lines, respectively. TDP-43 binding to UG repeats (UG13) near the 3′ splice site inhibits exon 9 inclusion. The two major products of splicing are shown to the right. B, RNAi-resistant (siRes) TDP-43 mutants were expressed in siRNA-treated HeLa cells. Relative TDP-43 activity was calculated comparing wild-type siRes. The effect of the RNA binding-deficient mutant, F147L/F149L, was used as control. Error bars, S.D., n > 5. C, constitutively active MEK_DD, or control GFP vector, expressed in siRNA or control treated cells. Reporter activity was analyzed relative to siRes wild-type (WTsiR). Values represent the averages of independent transfection experiments. Error bars, S.D., n ≥ 4.

Article Snippet: The rabbit polyclonal antibodies recognizing p-T153/Y155 and p-Y155-TDP-43 were produced by 21st Century Biochemicals, MA.

Techniques: Activity Assay, Binding Assay, RNA Binding Assay, Mutagenesis, Plasmid Preparation, Transfection

Journal: The Journal of Biological Chemistry

Article Title: Heat Shock-induced Phosphorylation of TAR DNA-binding Protein 43 (TDP-43) by MAPK/ERK Kinase Regulates TDP-43 Function *

doi: 10.1074/jbc.M116.753913

Figure Lengend Snippet: Fluorescence-based assay to measure TDP-43 RNA binding affinity for GU-repeats. A, intrinsic fluorescence (F) of recombinant TDP-43 upon titration of A(UG)6 RNA normalized by the fluorescence in the absence of RNA (F0). Shown are F/F0 values at four different TDP-43 concentrations and data were analyzed according to Equations 1 and 2 under “Experimental Procedures.” The best fit values for the apparent equilibrium dissociation constant, Kd(app), are shown in Table 1. B, schematic representation of full-length TDP-43 highlighting Trp-113 and Trp-172 in RRM1. Lower panel shows the surface and ribbon representation of the 102–269 fragment bound to GU-rich RNA (36). Tryptophan residues in RRM1 are highlighted in magenta.

Article Snippet: The rabbit polyclonal antibodies recognizing p-T153/Y155 and p-Y155-TDP-43 were produced by 21st Century Biochemicals, MA.

Techniques: Fluorescence, RNA Binding Assay, Recombinant, Titration

Journal: The Journal of Biological Chemistry

Article Title: Aβ43 levels determine the onset of pathological amyloid deposition

doi: 10.1016/j.jbc.2023.104868

Figure Lengend Snippet: Primary and amplification antibodies used for IHC

Article Snippet: Abeta43 , Amyloid Beta 43, Rabbit polyclonal, IBL-America , 80% Formic acid , 1:100 , DkαRb-bio & SA-HRP.

Techniques: Amplification