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mcherry coding sequence  (New England Biolabs)


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    Structured Review

    New England Biolabs mcherry coding sequence
    Mcherry Coding Sequence, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 1165 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/mcherry+coding+sequence/NotI-HF/pm39626663-302-29-35
    Average 99 stars, based on 1165 article reviews
    mcherry coding sequence - by Bioz Stars, 2026-09
    99/100 stars

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    Related Articles

    Mutagenesis:

    Article Title: Substrate-interacting pore loops of two ATPase subunits determine the degradation efficiency of the 26S proteasome.
    Article Snippet: .. After the desired mutation was confirmed by Sanger Sequencing (Quintara Biosciences), plasmids for the expression of mutant base subcomplexes (pAM371-388) were constructed by subcloning using the respective restriction enzymes (NEB; PstI (Cat# R3140S), SalI (Cat# R3138S), NotI (Cat# R3189S), BlpI (Cat# R0585S), FseI (Cat# R0588S), or PacI (Cat# R0547S)) and T7 DNA ligase (NEB, M0318S), and used to transform E. coli XL1-Gold Ultracompetent cells (Agilent, Cat# 200314). .. Plasmid sequences were confirmed using whole plasmid Next Generation Sequencing (Plasmidsaurus).

    Sequencing:

    Article Title: Substrate-interacting pore loops of two ATPase subunits determine the degradation efficiency of the 26S proteasome.
    Article Snippet: .. After the desired mutation was confirmed by Sanger Sequencing (Quintara Biosciences), plasmids for the expression of mutant base subcomplexes (pAM371-388) were constructed by subcloning using the respective restriction enzymes (NEB; PstI (Cat# R3140S), SalI (Cat# R3138S), NotI (Cat# R3189S), BlpI (Cat# R0585S), FseI (Cat# R0588S), or PacI (Cat# R0547S)) and T7 DNA ligase (NEB, M0318S), and used to transform E. coli XL1-Gold Ultracompetent cells (Agilent, Cat# 200314). .. Plasmid sequences were confirmed using whole plasmid Next Generation Sequencing (Plasmidsaurus).

    Article Title: Investigation of TRMT61B methyltransferase activity on mRNA and its effects on translation
    Article Snippet: For motif randomization experiments, 150–250 nucleotide sequences surrounding the m 1 A sites were commercially purchased (IDT) with common RT-PCR handle sequences and bases either 3 nucleotides upstream or downstream of the modification site were randomized to 25% A/C/G/T ( ). .. For in vitro luciferase translation experiments, 150–250 nucleotide sequences surrounding the m 1 A sites were commercially purchased (IDT; ) and inserted downstream of a T7 promoter and upstream of a NanoLuc sequence cloned into a pT7CFE1-His plasmid (Invitrogen, 88860) with the native T7 promoter mutated to be nonfunctional (TAATACGAgagACTATA) and cut with NotI-HF (NEB, R3189S). ..

    Expressing:

    Article Title: Substrate-interacting pore loops of two ATPase subunits determine the degradation efficiency of the 26S proteasome.
    Article Snippet: .. After the desired mutation was confirmed by Sanger Sequencing (Quintara Biosciences), plasmids for the expression of mutant base subcomplexes (pAM371-388) were constructed by subcloning using the respective restriction enzymes (NEB; PstI (Cat# R3140S), SalI (Cat# R3138S), NotI (Cat# R3189S), BlpI (Cat# R0585S), FseI (Cat# R0588S), or PacI (Cat# R0547S)) and T7 DNA ligase (NEB, M0318S), and used to transform E. coli XL1-Gold Ultracompetent cells (Agilent, Cat# 200314). .. Plasmid sequences were confirmed using whole plasmid Next Generation Sequencing (Plasmidsaurus).

    Article Title: ⍺TAT1-dependent microtubule acetylation is required for touch sensation in zebrafish but not for cilia-driven morphogenesis.
    Article Snippet: Acetylation of ⍺-tubulin at lysine 40 (⍺-tubK40Ac) is a conserved post-translational modification enriched on long-lived microtubules, yet its roles in vertebrate development remain incompletely defined.. In zebrafish, morpholino-based knockdown of the ⍺-tubulin acetyltransferase ⍺TAT1 has been reported to cause severe developmental defects, in contrast to genetic studies in mammals.. Here, we generated loss-of-function alleles of ⍺TAT1 in zebrafish and found that mutants, including maternal-zygotic mutants, are viable, fertile, and develop normally.

    Construct:

    Article Title: Substrate-interacting pore loops of two ATPase subunits determine the degradation efficiency of the 26S proteasome.
    Article Snippet: .. After the desired mutation was confirmed by Sanger Sequencing (Quintara Biosciences), plasmids for the expression of mutant base subcomplexes (pAM371-388) were constructed by subcloning using the respective restriction enzymes (NEB; PstI (Cat# R3140S), SalI (Cat# R3138S), NotI (Cat# R3189S), BlpI (Cat# R0585S), FseI (Cat# R0588S), or PacI (Cat# R0547S)) and T7 DNA ligase (NEB, M0318S), and used to transform E. coli XL1-Gold Ultracompetent cells (Agilent, Cat# 200314). .. Plasmid sequences were confirmed using whole plasmid Next Generation Sequencing (Plasmidsaurus).

    Subcloning:

    Article Title: Substrate-interacting pore loops of two ATPase subunits determine the degradation efficiency of the 26S proteasome.
    Article Snippet: .. After the desired mutation was confirmed by Sanger Sequencing (Quintara Biosciences), plasmids for the expression of mutant base subcomplexes (pAM371-388) were constructed by subcloning using the respective restriction enzymes (NEB; PstI (Cat# R3140S), SalI (Cat# R3138S), NotI (Cat# R3189S), BlpI (Cat# R0585S), FseI (Cat# R0588S), or PacI (Cat# R0547S)) and T7 DNA ligase (NEB, M0318S), and used to transform E. coli XL1-Gold Ultracompetent cells (Agilent, Cat# 200314). .. Plasmid sequences were confirmed using whole plasmid Next Generation Sequencing (Plasmidsaurus).

    Plasmid Preparation:

    Article Title: Reduced expression of an essential blood-stage Plasmodium phosphatidylserine synthase does not modulate parasite resistance to Pf ATP4 inhibitors
    Article Snippet: .. The synthetic fragment was excised from pUC57 by digestion with Not I (Catalog #R3189, New England Biolabs) and ligated into the NotI site of the pRSng backbone with T4 DNA ligase (Catalog #M0202, New England Biolabs) to form the repair plasmid pRSng-G223R ( ). ..

    Article Title: Self-organized hemanoids derived from human iPSCs create a niche that produces definitive extraembryonic hematopoiesis
    Article Snippet: The AAV vector plasmid was cloned into the pAAV-MCS plasmid (#240071, Agilent Technologies) containing inverted terminal repeats from AAV serotype 2 (AAV2), with a maximal packing capacity of 4,7 kb. .. The donor plasmid was assembled by standard Gibson assembly ( Table S1) of the NotI HF (#R3189S, NEB) linearized plasmid backbone using NEBuilder® HiFi DNA Assembly Mastermix (#E2621L, NEB). ..

    Article Title: Loss of Cathepsin Z enhances pro-inflammatory macrophage responses and promotes tissue regeneration.
    Article Snippet: .. The PCR product was purified and digested using NotI-HF (NEB) and ligated into the tnfα:mCherry-F vector at NotI-HF and EcoRV-HF (NEB) sites prior to transformation to competent E. coli cells (NEB). .. DNA was extracted and purified using a Qiagen MIDIprep kit according to the manufacturer’s instructions, and whole-plasmid sequencing was performed by Plasmidsaurus to check for correct insertion.

    Article Title: Investigation of TRMT61B methyltransferase activity on mRNA and its effects on translation
    Article Snippet: For motif randomization experiments, 150–250 nucleotide sequences surrounding the m 1 A sites were commercially purchased (IDT) with common RT-PCR handle sequences and bases either 3 nucleotides upstream or downstream of the modification site were randomized to 25% A/C/G/T ( ). .. For in vitro luciferase translation experiments, 150–250 nucleotide sequences surrounding the m 1 A sites were commercially purchased (IDT; ) and inserted downstream of a T7 promoter and upstream of a NanoLuc sequence cloned into a pT7CFE1-His plasmid (Invitrogen, 88860) with the native T7 promoter mutated to be nonfunctional (TAATACGAgagACTATA) and cut with NotI-HF (NEB, R3189S). ..

    Cloning:

    Article Title: Enhanced GPP synthesis by Erg20p-peptide fusions and biomolecular condensates boosts monoterpene production in yeast
    Article Snippet: Additionally, the EasyClone2.0 vector pCFB2225 (a gift from Irina Borodina, Addgene plasmid # 67553) was used to integrate gene constructs into the XII-2 locus . .. The following restriction enzymes were used for cloning: MreI (Thermo Fisher Scientific), BspEI (NEB), SpeI-HF(NEB), BamHI-HF(NEB), NheI-HF (NEB), NotI-HF(NEB), AgeI-HF(NEB), AscI (NEB), and XhoI (NEB). .. Promoters (CCW12p and HHF2p) and terminators (TDH1t, PGK1t, ENO2t, and ENO1t) that are not in the pJLA vectors were obtained from a published yeast toolkit on Addgene (Kit #1000000061), a gift from John Dueber .

    Polymerase Chain Reaction:

    Article Title: Loss of Cathepsin Z enhances pro-inflammatory macrophage responses and promotes tissue regeneration.
    Article Snippet: .. The PCR product was purified and digested using NotI-HF (NEB) and ligated into the tnfα:mCherry-F vector at NotI-HF and EcoRV-HF (NEB) sites prior to transformation to competent E. coli cells (NEB). .. DNA was extracted and purified using a Qiagen MIDIprep kit according to the manufacturer’s instructions, and whole-plasmid sequencing was performed by Plasmidsaurus to check for correct insertion.

    Purification:

    Article Title: Loss of Cathepsin Z enhances pro-inflammatory macrophage responses and promotes tissue regeneration.
    Article Snippet: .. The PCR product was purified and digested using NotI-HF (NEB) and ligated into the tnfα:mCherry-F vector at NotI-HF and EcoRV-HF (NEB) sites prior to transformation to competent E. coli cells (NEB). .. DNA was extracted and purified using a Qiagen MIDIprep kit according to the manufacturer’s instructions, and whole-plasmid sequencing was performed by Plasmidsaurus to check for correct insertion.

    Transformation Assay:

    Article Title: Loss of Cathepsin Z enhances pro-inflammatory macrophage responses and promotes tissue regeneration.
    Article Snippet: .. The PCR product was purified and digested using NotI-HF (NEB) and ligated into the tnfα:mCherry-F vector at NotI-HF and EcoRV-HF (NEB) sites prior to transformation to competent E. coli cells (NEB). .. DNA was extracted and purified using a Qiagen MIDIprep kit according to the manufacturer’s instructions, and whole-plasmid sequencing was performed by Plasmidsaurus to check for correct insertion.

    In Vitro:

    Article Title: Investigation of TRMT61B methyltransferase activity on mRNA and its effects on translation
    Article Snippet: For motif randomization experiments, 150–250 nucleotide sequences surrounding the m 1 A sites were commercially purchased (IDT) with common RT-PCR handle sequences and bases either 3 nucleotides upstream or downstream of the modification site were randomized to 25% A/C/G/T ( ). .. For in vitro luciferase translation experiments, 150–250 nucleotide sequences surrounding the m 1 A sites were commercially purchased (IDT; ) and inserted downstream of a T7 promoter and upstream of a NanoLuc sequence cloned into a pT7CFE1-His plasmid (Invitrogen, 88860) with the native T7 promoter mutated to be nonfunctional (TAATACGAgagACTATA) and cut with NotI-HF (NEB, R3189S). ..

    Luciferase:

    Article Title: Investigation of TRMT61B methyltransferase activity on mRNA and its effects on translation
    Article Snippet: For motif randomization experiments, 150–250 nucleotide sequences surrounding the m 1 A sites were commercially purchased (IDT) with common RT-PCR handle sequences and bases either 3 nucleotides upstream or downstream of the modification site were randomized to 25% A/C/G/T ( ). .. For in vitro luciferase translation experiments, 150–250 nucleotide sequences surrounding the m 1 A sites were commercially purchased (IDT; ) and inserted downstream of a T7 promoter and upstream of a NanoLuc sequence cloned into a pT7CFE1-His plasmid (Invitrogen, 88860) with the native T7 promoter mutated to be nonfunctional (TAATACGAgagACTATA) and cut with NotI-HF (NEB, R3189S). ..

    Clone Assay:

    Article Title: Investigation of TRMT61B methyltransferase activity on mRNA and its effects on translation
    Article Snippet: For motif randomization experiments, 150–250 nucleotide sequences surrounding the m 1 A sites were commercially purchased (IDT) with common RT-PCR handle sequences and bases either 3 nucleotides upstream or downstream of the modification site were randomized to 25% A/C/G/T ( ). .. For in vitro luciferase translation experiments, 150–250 nucleotide sequences surrounding the m 1 A sites were commercially purchased (IDT; ) and inserted downstream of a T7 promoter and upstream of a NanoLuc sequence cloned into a pT7CFE1-His plasmid (Invitrogen, 88860) with the native T7 promoter mutated to be nonfunctional (TAATACGAgagACTATA) and cut with NotI-HF (NEB, R3189S). ..



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    ( A ) Top: domain diagram of WT Hop1. Bottom: diagram of the deleted or mutated Hop1 sites in the 6 analyzed mutants (). ( B ) Protein localization and phenotypes of the hop1-HORMAΔ mutant. Top: In the hop1Δ background, the mutant protein tagged with <t>mCherry</t> (mC, left) is not visible along the axes, marked <t>by</t> <t>Spo76-GFP</t> (middle) and merge (right). Bottom: colocalization with Ecm11-GFP + Hei10-GFP (middle) indicates that only few SC segments (containing Hei10 foci, arrows) are formed in this mutant; right corresponding DAPI. ( C, D ) hop1-HORMAΔ SCs exhibit the same length ( C ) and Hei10 foci number ( D ) as hop1Δ . Mean and error bar (SD) are indicated for each set. Significance between WT, hop1Δ and hop1-HORMAΔ nuclei was established by Brown–Forsythe ANOVA test: ns = not significant, P -value > 0.05; n = 38 and 42 nuclei. ( E ) hop1-only-HORMA . Top: the HORMA domain alone is sufficient for axis localization of the protein but only as discontinuous segments (arrows) that colocalize with Spo76-GFP (arrows middle and merge right) in contrast to the continuous lines seen in WT with Hop1-mCherry (right). Bottom: colocalization of Hop1-only-HORMA-mC (left) with Ecm11-GFP and Hei10-GFP (middle) and merge (right) indicates that the visible mutant segments correspond to SCs. ( C ) The mutant SCs have the same length as hop1Δ SCs ( C ) but exhibit a slightly lower number of Hei10 foci ( D ): Brown–Forsythe ANOVA test, ns = not significant; n = 31 and 42 nuclei. Scale bars: 2 μm. The raw data underlying panels 6C and 6D are available in . SC, synaptonemal complex; WT, wild-type.
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    ( A ) Top: domain diagram of WT Hop1. Bottom: diagram of the deleted or mutated Hop1 sites in the 6 analyzed mutants (). ( B ) Protein localization and phenotypes of the hop1-HORMAΔ mutant. Top: In the hop1Δ background, the mutant protein tagged with <t>mCherry</t> (mC, left) is not visible along the axes, marked <t>by</t> <t>Spo76-GFP</t> (middle) and merge (right). Bottom: colocalization with Ecm11-GFP + Hei10-GFP (middle) indicates that only few SC segments (containing Hei10 foci, arrows) are formed in this mutant; right corresponding DAPI. ( C, D ) hop1-HORMAΔ SCs exhibit the same length ( C ) and Hei10 foci number ( D ) as hop1Δ . Mean and error bar (SD) are indicated for each set. Significance between WT, hop1Δ and hop1-HORMAΔ nuclei was established by Brown–Forsythe ANOVA test: ns = not significant, P -value > 0.05; n = 38 and 42 nuclei. ( E ) hop1-only-HORMA . Top: the HORMA domain alone is sufficient for axis localization of the protein but only as discontinuous segments (arrows) that colocalize with Spo76-GFP (arrows middle and merge right) in contrast to the continuous lines seen in WT with Hop1-mCherry (right). Bottom: colocalization of Hop1-only-HORMA-mC (left) with Ecm11-GFP and Hei10-GFP (middle) and merge (right) indicates that the visible mutant segments correspond to SCs. ( C ) The mutant SCs have the same length as hop1Δ SCs ( C ) but exhibit a slightly lower number of Hei10 foci ( D ): Brown–Forsythe ANOVA test, ns = not significant; n = 31 and 42 nuclei. Scale bars: 2 μm. The raw data underlying panels 6C and 6D are available in . SC, synaptonemal complex; WT, wild-type.
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    ( A ) Top: domain diagram of WT Hop1. Bottom: diagram of the deleted or mutated Hop1 sites in the 6 analyzed mutants (). ( B ) Protein localization and phenotypes of the hop1-HORMAΔ mutant. Top: In the hop1Δ background, the mutant protein tagged with <t>mCherry</t> (mC, left) is not visible along the axes, marked <t>by</t> <t>Spo76-GFP</t> (middle) and merge (right). Bottom: colocalization with Ecm11-GFP + Hei10-GFP (middle) indicates that only few SC segments (containing Hei10 foci, arrows) are formed in this mutant; right corresponding DAPI. ( C, D ) hop1-HORMAΔ SCs exhibit the same length ( C ) and Hei10 foci number ( D ) as hop1Δ . Mean and error bar (SD) are indicated for each set. Significance between WT, hop1Δ and hop1-HORMAΔ nuclei was established by Brown–Forsythe ANOVA test: ns = not significant, P -value > 0.05; n = 38 and 42 nuclei. ( E ) hop1-only-HORMA . Top: the HORMA domain alone is sufficient for axis localization of the protein but only as discontinuous segments (arrows) that colocalize with Spo76-GFP (arrows middle and merge right) in contrast to the continuous lines seen in WT with Hop1-mCherry (right). Bottom: colocalization of Hop1-only-HORMA-mC (left) with Ecm11-GFP and Hei10-GFP (middle) and merge (right) indicates that the visible mutant segments correspond to SCs. ( C ) The mutant SCs have the same length as hop1Δ SCs ( C ) but exhibit a slightly lower number of Hei10 foci ( D ): Brown–Forsythe ANOVA test, ns = not significant; n = 31 and 42 nuclei. Scale bars: 2 μm. The raw data underlying panels 6C and 6D are available in . SC, synaptonemal complex; WT, wild-type.
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    ( A ) Top: domain diagram of WT Hop1. Bottom: diagram of the deleted or mutated Hop1 sites in the 6 analyzed mutants (). ( B ) Protein localization and phenotypes of the hop1-HORMAΔ mutant. Top: In the hop1Δ background, the mutant protein tagged with <t>mCherry</t> (mC, left) is not visible along the axes, marked <t>by</t> <t>Spo76-GFP</t> (middle) and merge (right). Bottom: colocalization with Ecm11-GFP + Hei10-GFP (middle) indicates that only few SC segments (containing Hei10 foci, arrows) are formed in this mutant; right corresponding DAPI. ( C, D ) hop1-HORMAΔ SCs exhibit the same length ( C ) and Hei10 foci number ( D ) as hop1Δ . Mean and error bar (SD) are indicated for each set. Significance between WT, hop1Δ and hop1-HORMAΔ nuclei was established by Brown–Forsythe ANOVA test: ns = not significant, P -value > 0.05; n = 38 and 42 nuclei. ( E ) hop1-only-HORMA . Top: the HORMA domain alone is sufficient for axis localization of the protein but only as discontinuous segments (arrows) that colocalize with Spo76-GFP (arrows middle and merge right) in contrast to the continuous lines seen in WT with Hop1-mCherry (right). Bottom: colocalization of Hop1-only-HORMA-mC (left) with Ecm11-GFP and Hei10-GFP (middle) and merge (right) indicates that the visible mutant segments correspond to SCs. ( C ) The mutant SCs have the same length as hop1Δ SCs ( C ) but exhibit a slightly lower number of Hei10 foci ( D ): Brown–Forsythe ANOVA test, ns = not significant; n = 31 and 42 nuclei. Scale bars: 2 μm. The raw data underlying panels 6C and 6D are available in . SC, synaptonemal complex; WT, wild-type.
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    a, Diagram illustrating the injection <t>of</t> <t>AAV-hMAG-mCherry</t> and <t>AAV-hMAG-DTA</t> into the mouse cerebellum at early postnatal days (P6-7). b, Fluorescence microscopy image showing mCherry expression (red) in the section of cerebellum at P14 following AAV-hMAG-mCherry injection at P7. Scale bar, 300 µm. c, Specificity of mCherry expression (red) in ASPA-positive oligodendrocytes (green) at P14 by AAV-hMAG-mCherry injection at P7. Scale bar, 100 µm. d, Scatter plot graph depicting the percentage of RFP and ASPA double-positive cells among RFP-positive populations (from 2 mice). e, Sequential visualization of oligodendrocyte deletion over time, indicated by ASPA staining in cerebellar sections from control (AAV-hMAG-mCherry) and DTA-treated (AAV-hMAG-DTA) mice at P10, P14, P21, and P78. Scale bar, 100 µm. f, Quantification of ASPA-positive cell density at each stage (from 3 mice per group per each stage). Bars and dots indicate mean and data from individual fields of view, respectively. g-i, Decrease in correlation coefficients (CCs) indicating reduced synchrony of spontaneous activities among PC population at P13-15 following DTA-mediated oligodendrocyte ablation. g, Representative time-course of spontaneous calcium transients by extracting relative fluorescence changes by in vivo calcium imaging captured from 25 regions of interest (ROIs) in the cerebellum of control and DTA-expressing mice at P14. Scale bar = 20 s. Y-axis is ΔF/F0 = (F - F0)/(F0). h, Correlation coefficient matrices for spontaneous calcium transient activity across multiple ROIs in CTL (upper panel) and DTA (lower panel) mice, with the color scale indicating the strength of the correlation between pairs of ROIs. i, Scatter plot graph of CCs for ROI pairs, categorized by separation distances of 0–80 mm and 120–200 mm (analyzed from four mice per group). Lines and plots indicate mean and data from individual separation distances, respectively. j-l, Quantification of the frequency, amplitude, and integrated area of calcium transients in control (AAV-hMAG-mCherry) and DTA-treated (AAV-hMAG-DTA) mice at P13-15 (data from four mice per group). Bars and dots indicate mean and data from individual ROIs, respectively. **** p < 0.0001 (Mann-Whitney U test).
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    Image Search Results


    ( A ) Top: domain diagram of WT Hop1. Bottom: diagram of the deleted or mutated Hop1 sites in the 6 analyzed mutants (). ( B ) Protein localization and phenotypes of the hop1-HORMAΔ mutant. Top: In the hop1Δ background, the mutant protein tagged with mCherry (mC, left) is not visible along the axes, marked by Spo76-GFP (middle) and merge (right). Bottom: colocalization with Ecm11-GFP + Hei10-GFP (middle) indicates that only few SC segments (containing Hei10 foci, arrows) are formed in this mutant; right corresponding DAPI. ( C, D ) hop1-HORMAΔ SCs exhibit the same length ( C ) and Hei10 foci number ( D ) as hop1Δ . Mean and error bar (SD) are indicated for each set. Significance between WT, hop1Δ and hop1-HORMAΔ nuclei was established by Brown–Forsythe ANOVA test: ns = not significant, P -value > 0.05; n = 38 and 42 nuclei. ( E ) hop1-only-HORMA . Top: the HORMA domain alone is sufficient for axis localization of the protein but only as discontinuous segments (arrows) that colocalize with Spo76-GFP (arrows middle and merge right) in contrast to the continuous lines seen in WT with Hop1-mCherry (right). Bottom: colocalization of Hop1-only-HORMA-mC (left) with Ecm11-GFP and Hei10-GFP (middle) and merge (right) indicates that the visible mutant segments correspond to SCs. ( C ) The mutant SCs have the same length as hop1Δ SCs ( C ) but exhibit a slightly lower number of Hei10 foci ( D ): Brown–Forsythe ANOVA test, ns = not significant; n = 31 and 42 nuclei. Scale bars: 2 μm. The raw data underlying panels 6C and 6D are available in . SC, synaptonemal complex; WT, wild-type.

    Journal: PLOS Biology

    Article Title: Canonical and noncanonical roles of Hop1 are crucial for meiotic prophase in the fungus Sordaria macrospora

    doi: 10.1371/journal.pbio.3002705

    Figure Lengend Snippet: ( A ) Top: domain diagram of WT Hop1. Bottom: diagram of the deleted or mutated Hop1 sites in the 6 analyzed mutants (). ( B ) Protein localization and phenotypes of the hop1-HORMAΔ mutant. Top: In the hop1Δ background, the mutant protein tagged with mCherry (mC, left) is not visible along the axes, marked by Spo76-GFP (middle) and merge (right). Bottom: colocalization with Ecm11-GFP + Hei10-GFP (middle) indicates that only few SC segments (containing Hei10 foci, arrows) are formed in this mutant; right corresponding DAPI. ( C, D ) hop1-HORMAΔ SCs exhibit the same length ( C ) and Hei10 foci number ( D ) as hop1Δ . Mean and error bar (SD) are indicated for each set. Significance between WT, hop1Δ and hop1-HORMAΔ nuclei was established by Brown–Forsythe ANOVA test: ns = not significant, P -value > 0.05; n = 38 and 42 nuclei. ( E ) hop1-only-HORMA . Top: the HORMA domain alone is sufficient for axis localization of the protein but only as discontinuous segments (arrows) that colocalize with Spo76-GFP (arrows middle and merge right) in contrast to the continuous lines seen in WT with Hop1-mCherry (right). Bottom: colocalization of Hop1-only-HORMA-mC (left) with Ecm11-GFP and Hei10-GFP (middle) and merge (right) indicates that the visible mutant segments correspond to SCs. ( C ) The mutant SCs have the same length as hop1Δ SCs ( C ) but exhibit a slightly lower number of Hei10 foci ( D ): Brown–Forsythe ANOVA test, ns = not significant; n = 31 and 42 nuclei. Scale bars: 2 μm. The raw data underlying panels 6C and 6D are available in . SC, synaptonemal complex; WT, wild-type.

    Article Snippet: GFP and mCherry coding sequences (p-EGFP-1, Clontech; pRsetB-mCherry) were fused to the C-terminus of HOP1 under the control of the HOP1 promoter.

    Techniques: Mutagenesis

    a, Diagram illustrating the injection of AAV-hMAG-mCherry and AAV-hMAG-DTA into the mouse cerebellum at early postnatal days (P6-7). b, Fluorescence microscopy image showing mCherry expression (red) in the section of cerebellum at P14 following AAV-hMAG-mCherry injection at P7. Scale bar, 300 µm. c, Specificity of mCherry expression (red) in ASPA-positive oligodendrocytes (green) at P14 by AAV-hMAG-mCherry injection at P7. Scale bar, 100 µm. d, Scatter plot graph depicting the percentage of RFP and ASPA double-positive cells among RFP-positive populations (from 2 mice). e, Sequential visualization of oligodendrocyte deletion over time, indicated by ASPA staining in cerebellar sections from control (AAV-hMAG-mCherry) and DTA-treated (AAV-hMAG-DTA) mice at P10, P14, P21, and P78. Scale bar, 100 µm. f, Quantification of ASPA-positive cell density at each stage (from 3 mice per group per each stage). Bars and dots indicate mean and data from individual fields of view, respectively. g-i, Decrease in correlation coefficients (CCs) indicating reduced synchrony of spontaneous activities among PC population at P13-15 following DTA-mediated oligodendrocyte ablation. g, Representative time-course of spontaneous calcium transients by extracting relative fluorescence changes by in vivo calcium imaging captured from 25 regions of interest (ROIs) in the cerebellum of control and DTA-expressing mice at P14. Scale bar = 20 s. Y-axis is ΔF/F0 = (F - F0)/(F0). h, Correlation coefficient matrices for spontaneous calcium transient activity across multiple ROIs in CTL (upper panel) and DTA (lower panel) mice, with the color scale indicating the strength of the correlation between pairs of ROIs. i, Scatter plot graph of CCs for ROI pairs, categorized by separation distances of 0–80 mm and 120–200 mm (analyzed from four mice per group). Lines and plots indicate mean and data from individual separation distances, respectively. j-l, Quantification of the frequency, amplitude, and integrated area of calcium transients in control (AAV-hMAG-mCherry) and DTA-treated (AAV-hMAG-DTA) mice at P13-15 (data from four mice per group). Bars and dots indicate mean and data from individual ROIs, respectively. **** p < 0.0001 (Mann-Whitney U test).

    Journal: bioRxiv

    Article Title: Oligodendrocyte dependent synchronized activity orchestrates circuit maturation and brain functionalization

    doi: 10.1101/2024.05.06.590880

    Figure Lengend Snippet: a, Diagram illustrating the injection of AAV-hMAG-mCherry and AAV-hMAG-DTA into the mouse cerebellum at early postnatal days (P6-7). b, Fluorescence microscopy image showing mCherry expression (red) in the section of cerebellum at P14 following AAV-hMAG-mCherry injection at P7. Scale bar, 300 µm. c, Specificity of mCherry expression (red) in ASPA-positive oligodendrocytes (green) at P14 by AAV-hMAG-mCherry injection at P7. Scale bar, 100 µm. d, Scatter plot graph depicting the percentage of RFP and ASPA double-positive cells among RFP-positive populations (from 2 mice). e, Sequential visualization of oligodendrocyte deletion over time, indicated by ASPA staining in cerebellar sections from control (AAV-hMAG-mCherry) and DTA-treated (AAV-hMAG-DTA) mice at P10, P14, P21, and P78. Scale bar, 100 µm. f, Quantification of ASPA-positive cell density at each stage (from 3 mice per group per each stage). Bars and dots indicate mean and data from individual fields of view, respectively. g-i, Decrease in correlation coefficients (CCs) indicating reduced synchrony of spontaneous activities among PC population at P13-15 following DTA-mediated oligodendrocyte ablation. g, Representative time-course of spontaneous calcium transients by extracting relative fluorescence changes by in vivo calcium imaging captured from 25 regions of interest (ROIs) in the cerebellum of control and DTA-expressing mice at P14. Scale bar = 20 s. Y-axis is ΔF/F0 = (F - F0)/(F0). h, Correlation coefficient matrices for spontaneous calcium transient activity across multiple ROIs in CTL (upper panel) and DTA (lower panel) mice, with the color scale indicating the strength of the correlation between pairs of ROIs. i, Scatter plot graph of CCs for ROI pairs, categorized by separation distances of 0–80 mm and 120–200 mm (analyzed from four mice per group). Lines and plots indicate mean and data from individual separation distances, respectively. j-l, Quantification of the frequency, amplitude, and integrated area of calcium transients in control (AAV-hMAG-mCherry) and DTA-treated (AAV-hMAG-DTA) mice at P13-15 (data from four mice per group). Bars and dots indicate mean and data from individual ROIs, respectively. **** p < 0.0001 (Mann-Whitney U test).

    Article Snippet: For AAV-hMAG-DTA, we amplified the DTA coding sequence from the pAAV-mCherry-flex-dtA (a gift from Naoshige Uchida, Addgene plasmid # 58536) using primer pairs (Table.

    Techniques: Injection, Fluorescence, Microscopy, Expressing, Staining, Control, In Vivo, Imaging, Activity Assay, MANN-WHITNEY

    a , Representative traces of CF-EPSCs in PCs from control (CTL) and AAV-hMAG-DTA-injected (DTA) mice at P23. Scale bar, 0.5 nA, 10 ms. b , Frequency distributions of the number of CFs innervating each PC during P23 to P47 for control (orange columns, n = 58 cells, 7 mice) and AAV-hMAG-DTA-injected (cyan, n = 66 cells, 9 mice) mice. c , Average total amplitude of CF-EPSCs (summation of all CF-EPSC in each PC) for control (orange columns) and AAV-hMAG-DTA-injected mice (cyan), with individual data points (from each cell) overlaid on the bars. d , Fluorescence microscopy images showing PCs labeled with Car8 (magenta) and climbing fiber terminals with vesicular glutamate transporter type 2 (VGluT2, green) in control and AAV-hMAG-DTA-injected mice at P21 and P72. Scale bars: 20 µm. e, Frequency distributions of the number of perisomatic CF terminals on PCs for control (orange, n = 253 cells, 3 mice at P12; n = 159 cells, 3 mice at P72-P76) and AAV-hMAG-DTA-injected mice (cyan, n = 157 cells, 3 mice at P12; n = 160 cells, 3 mice at P72-P76). f , Immunofluorescence images showing VGluT2 (green) in control and AAV-hMAG-DTA-injected mice at P21 and P72, highlighting the top dots of VGluT2 in the molecular layer (arrows) and the demarcation between dendrites and soma of each PC (dotted line). Scale bars: 20 µm. g , Bar graph summarizing the relative positioning of CF terminals to the molecular layer thickness in control versus AAV-hMAG-DTA-injected mice at P21 and P72-P82 (n = 13-18 measurements per group, from 3 mice each). Statistical significance denoted as **p < 0.01 and ****p < 0.0001, according to Mann-Whitney U tests.

    Journal: bioRxiv

    Article Title: Oligodendrocyte dependent synchronized activity orchestrates circuit maturation and brain functionalization

    doi: 10.1101/2024.05.06.590880

    Figure Lengend Snippet: a , Representative traces of CF-EPSCs in PCs from control (CTL) and AAV-hMAG-DTA-injected (DTA) mice at P23. Scale bar, 0.5 nA, 10 ms. b , Frequency distributions of the number of CFs innervating each PC during P23 to P47 for control (orange columns, n = 58 cells, 7 mice) and AAV-hMAG-DTA-injected (cyan, n = 66 cells, 9 mice) mice. c , Average total amplitude of CF-EPSCs (summation of all CF-EPSC in each PC) for control (orange columns) and AAV-hMAG-DTA-injected mice (cyan), with individual data points (from each cell) overlaid on the bars. d , Fluorescence microscopy images showing PCs labeled with Car8 (magenta) and climbing fiber terminals with vesicular glutamate transporter type 2 (VGluT2, green) in control and AAV-hMAG-DTA-injected mice at P21 and P72. Scale bars: 20 µm. e, Frequency distributions of the number of perisomatic CF terminals on PCs for control (orange, n = 253 cells, 3 mice at P12; n = 159 cells, 3 mice at P72-P76) and AAV-hMAG-DTA-injected mice (cyan, n = 157 cells, 3 mice at P12; n = 160 cells, 3 mice at P72-P76). f , Immunofluorescence images showing VGluT2 (green) in control and AAV-hMAG-DTA-injected mice at P21 and P72, highlighting the top dots of VGluT2 in the molecular layer (arrows) and the demarcation between dendrites and soma of each PC (dotted line). Scale bars: 20 µm. g , Bar graph summarizing the relative positioning of CF terminals to the molecular layer thickness in control versus AAV-hMAG-DTA-injected mice at P21 and P72-P82 (n = 13-18 measurements per group, from 3 mice each). Statistical significance denoted as **p < 0.01 and ****p < 0.0001, according to Mann-Whitney U tests.

    Article Snippet: For AAV-hMAG-DTA, we amplified the DTA coding sequence from the pAAV-mCherry-flex-dtA (a gift from Naoshige Uchida, Addgene plasmid # 58536) using primer pairs (Table.

    Techniques: Control, Injection, Fluorescence, Microscopy, Labeling, Immunofluorescence, MANN-WHITNEY