Journal: eLife

Article Title: LKB1 coordinates neurite remodeling to drive synapse layer emergence in the outer retina

doi: 10.7554/eLife.56931

Figure Lengend Snippet: Antibodies used in LKB1 mutant tissue analysis. Antibodies were utilized that label individual neuron populations and synapses in the outer retina.

Article Snippet: Calbindin D-28k , Full-length recombinant human Calbindin D-28K , Horizontal cells; amacrine cells; retinal ganglion cells , Novus biologicals; chicken polyclonal; NBP2-50028; no RRID , 1:2000.

Techniques: Mutagenesis, Labeling, Concentration Assay, Recombinant, Derivative Assay, Purification

Journal: Scientific Reports

Article Title: The temporal progression of retinal degeneration and early-stage idebenone treatment in the Pde6b rd1/rd1 mouse model of retinal dystrophy

doi: 10.1038/s41598-024-52391-y

Figure Lengend Snippet: Antibodies utilized for immunohistochemical and immunofluorescent staining.

Article Snippet: Calbindin D28K , Novus , 1:1000/1:1000 , Chicken , NBP2-50028.

Techniques: Immunohistochemical staining, Staining

Journal: PLOS Pathogens

Article Title: Deciphering infected cell types, hub gene networks and cell-cell communication in infectious bronchitis virus via single-cell RNA sequencing

doi: 10.1371/journal.ppat.1012232

Figure Lengend Snippet: (a) White arrows indicate the localization of IBV N protein in AQP2-expressing collecting duct cells. Green fluorescence shows positive staining for IBV N and red fluorescence shows staining for AQP2. (b) White arrows indicate the localization of IBV N protein in CALB1-expressing distal tubule cells. Red fluorescence shows positive staining for IBV N and green fluorescence shows staining for CALB1. (c) Changes in cell communication numbers: The top network diagram shows cell clusters as nodes, with line thickness indicating changes in communication numbers. The lower heatmap details these changes, with rows representing signal-sending cells and columns indicating signal-receiving cells. The color scale reflects the inter-group differences in signal communication frequency between different cell types (number of communications in the infected group—number in control group). The bar plots at the top and right side represent the overall differences in the number of signals sent/received by specific cell clusters. (d) Changes in cell communication strength: Similar to (c), with the top network diagram displaying changes in communication strength (communication strength in the infected group—strength in the control group). In the lower heatmap, the color scale reflects the inter-group differences in signal communication strength between different cell types. The bar plots at the top and right side represent the overall differences in the strength of signals sent/received by specific cell clusters (infected group—control group). (e) Inter-group differences in the communication strength of specific signaling pathways (receptor-ligand pairs) across cell clusters. Rows represent signal pathways and columns correspond to cell clusters, with heatmap colors depicting the strength variation of signals (infect group vs. control group). Upper left triangles for signal sent and lower right triangles for signal received. The bar plot on the right side shows the overall difference in communication strength of these signaling pathways between the IBV-infected group and the control group.

Article Snippet: mouse mab calb1 , 1:200 , Boster Bio (BM0203).

Techniques: Expressing, Fluorescence, Staining, Infection, Control, Protein-Protein interactions

Journal: PLOS Pathogens

Article Title: Deciphering infected cell types, hub gene networks and cell-cell communication in infectious bronchitis virus via single-cell RNA sequencing

doi: 10.1371/journal.ppat.1012232

Figure Lengend Snippet: Antbodies and reagents used in present study.

Article Snippet: mouse mab calb1 , 1:200 , Boster Bio (BM0203).

Techniques: Blocking Assay, Immunofluorescence

Journal: Journal of Animal Science and Biotechnology

Article Title: Adjusting phosphate feeding regimen according to daily rhythm increases eggshell quality via enhancing medullary bone remodeling in laying hens

doi: 10.1186/s40104-023-00829-0

Figure Lengend Snippet: Diurnal rhythms of serum calcium and phosphorus levels and uterine protein expressions in 40-week-old Hy-Line Brown laying hens during the egg laying cycle. A ) Serum calcium ( n = 9 per group); B ) serum phosphorus ( n = 9 per group); C ) protein expression of TRPV6 and CaBP-D28k ( n = 4 per group). White and black bars represent the light and dark. Data are presented as the mean ± SEM. P < 0.05 by one-way ANOVA followed by Duncan's multiple range tests and the letters (a–d) indicate significant differences among all treatment groups ( P < 0.05). ACTB, β-actin; CaBP-D28k, Calbindin D‐28k; TRPV6, Transient receptor potential vanilloid 6

Article Snippet: Primary antibodies (rabbit) to type 2a sodium-phosphate co-transporter (NPt2a, catalogue no. A9460), type III sodium-dependent phosphate transporter 1 (PiT1, catalogue no. A4117), type III sodium-dependent phosphate transporter 2 (PiT2, catalogue no. A6739), transient receptor potential vanilloid 6 (TRPV6, catalogue no. A16128), and calbindin D‐28k (CaBP-D28k, catalogue no. A0802) were purchased from ABclonal Technology (Wuhan, Hubei, China).

Techniques: Expressing

Journal: Journal of Animal Science and Biotechnology

Article Title: Adjusting phosphate feeding regimen according to daily rhythm increases eggshell quality via enhancing medullary bone remodeling in laying hens

doi: 10.1186/s40104-023-00829-0

Figure Lengend Snippet: Daily dynamic phosphorus feeding regimen increased uterine calcium transportation and eggshell quality in 70-week-old Hy-Line Brown laying hens for 12 weeks. A ) Eggshell thickness ( n = 62−66 per group); B ) eggshell strength ( n = 62−66 per group); C ) egg specific gravity ( n = 61−66 per group); D ) shell index ( n = 62−63 per group); D ) western blot analysis and statistical analysis of protein abundances of ACTB, TRPV6 and CaBP-D28k in the uterus collected from 18 h post-oviposition ( n = 3 per group), all samples were normalized to their respective ACTB levels of each sample. Data are presented as the mean ± SEM. P < 0.05 by one-way ANOVA followed by Duncan's multiple range tests and the letters (a−c) indicate significant differences among all treatment groups ( P < 0.05). RR, provided with regular phosphorus diet at both 09:00 and 17:00 for 12 weeks; RL, provided with regular phosphorus diet at 09:00 and low phosphorus diet at 17:00 for 12 weeks; LR, provided with low phosphorus diet at 09:00 and regular phosphorus diet at 17:00 for 12 weeks; LL, provided with low phosphorus diet at both 09:00 and 17:00 for 12 weeks. ACTB, β-actin; CaBP-D28k, Calbindin D‐28k; TRPV6, Transient receptor potential vanilloid 6

Article Snippet: Primary antibodies (rabbit) to type 2a sodium-phosphate co-transporter (NPt2a, catalogue no. A9460), type III sodium-dependent phosphate transporter 1 (PiT1, catalogue no. A4117), type III sodium-dependent phosphate transporter 2 (PiT2, catalogue no. A6739), transient receptor potential vanilloid 6 (TRPV6, catalogue no. A16128), and calbindin D‐28k (CaBP-D28k, catalogue no. A0802) were purchased from ABclonal Technology (Wuhan, Hubei, China).

Techniques: Western Blot

Journal: Frontiers in Neuroscience

Article Title: Dystrophin Is Required for the Proper Timing in Retinal Histogenesis: A Thorough Investigation on the mdx Mouse Model of Duchenne Muscular Dystrophy

doi: 10.3389/fnins.2020.00760

Figure Lengend Snippet: Primary antibodies used for immunofluorescence.

Article Snippet: Rabbit anti-calbindin (HC) , 1:1000 , Merck Millipore (Billerica, MA, United States).

Techniques: Immunofluorescence

Journal: PLoS ONE

Article Title: Downregulation of splicing regulator RBFOX1 compromises visual depth perception

doi: 10.1371/journal.pone.0200417

Figure Lengend Snippet: Rbfox1 immunoreactivity is present in the ganglion cell layer (GCL) and inner nuclear layer (INL) of the retina. Rbfox1-positive cells in the INL, which contains cell bodies of horizontal cells (HCs), bipolar cells and amacrine cells (ACs), as well as Muller glia cells, were primarily localized proximal to the inner plexiform layer (IPL). A. Rbfox1 was colocalized with Rbpms-positive RGCs. White arrows point at several Rbfox1/Rbpms-positive RGCs. B. Calbindin-positive displaced ACs (dACs; blue arrows) and ACs with cell bodies localized at the margin with IPL (white arrows) were also immunoreactive for Rbfox1. C. Colocalization of Rbfox1 and Rbfox2 showed significant overlap in expression of these genes within GCL. In the INL, as stated above, Rbfox1 is expressed in ACs adjacent to the IPL, whereas the expression of Rbfox2 is more widely distributed among ACs. White arrows point at Rbfox2-positive/Rbfox1-negative ACs and dACs in the INL and GCL, respectively. Blue arrows indicate Rbfox2-positive HCs. D and E. Colocalization of Rbfox1 and Rbfox2 with cells that are immunoreactive for calbindin generated against C-terminal peptide. These anti-calbindin antibodies show strong immunoreactivity in HCs. Arrows point at HCs in the INL that are immunoreactive for calbindin and Rbfox2. ONL, outer nuclear layer, OPL; outer plexiform layer, DAPI; 4',6-diamidino-2-phenylindole.

Article Snippet: We used Rbpms as a marker for RGCs [ ] and calbindin (immunogen—purified bovine cerebellum calbindin D-28K protein) to identify ACs, dACs and horizontal cells (HCs), although ACs in the INL and dACs in the GCL show variable expression of this marker [ , ].

Techniques: Expressing, Generated

Journal: PLoS ONE

Article Title: Downregulation of splicing regulator RBFOX1 compromises visual depth perception

doi: 10.1371/journal.pone.0200417

Figure Lengend Snippet: A. In the inner nuclear layer (INL) many Rbfox1 immunoreactive cells were colocalized with GABAergic ACs. Blue arrows point at several Rbfox1/GABA-positive cells in the INL. White arrows point at GABAergic cells in the INL and GCL that were not immunostained for Rbfox1. In the ganglion cell layer (GCL), a vast majority of GABAergic dACs were Rbfox1-immunopositive. B. All ChAT-immunoreactive starburst ACs (SACs) in the INL (type a) and in the GCL (type b) were Rbfox1-positive. White and blue arrows point at several type a and type b SACs, respectively that are colocalized with Rbfox1-positive cells. ONL, outer nuclear layer, OPL, outer plexiform layer; IPL, the inner plexiform layer; DAPI (4',6-diamidino-2-phenylindole).

Article Snippet: We used Rbpms as a marker for RGCs [ ] and calbindin (immunogen—purified bovine cerebellum calbindin D-28K protein) to identify ACs, dACs and horizontal cells (HCs), although ACs in the INL and dACs in the GCL show variable expression of this marker [ , ].

Techniques:

Journal: PLoS ONE

Article Title: Downregulation of splicing regulator RBFOX1 compromises visual depth perception

doi: 10.1371/journal.pone.0200417

Figure Lengend Snippet: A. At P0, along with cells with cytoplasmic Rbfox1 expression, there are cells in the GCL with pronounced nuclear staining (pointed by arrows). Most of Rbfox1 and Rbpms expression is colocalized indicating that these cells are RGCs. B and C. At P5, Rbfox1 expression switches to be predominantly nuclear especially in RGCs and dACs. More cells with nuclear expression of Rbfox1 also appear in the INL. Arrows point at several cells in the GCL and INL with Rbfox1 nuclear staining. D. A significant overlap exists between Rbfox1 and Rbfox2 expression at P5, though in both, the GCL and INL, there are cells with specific expression of one or the other paralog. Rbfox1 staining in the IPL (B, C and D) is non-specific since it was also observed in a control experiment with only secondary antibodies. Blue and white arrows point at several Rbfox1-positive/Rbfox2-negative and Rbfox2-positive/Rbfox1-negative cells, respectively.

Article Snippet: We used Rbpms as a marker for RGCs [ ] and calbindin (immunogen—purified bovine cerebellum calbindin D-28K protein) to identify ACs, dACs and horizontal cells (HCs), although ACs in the INL and dACs in the GCL show variable expression of this marker [ , ].

Techniques: Expressing, Staining, Control

Journal: PLoS ONE

Article Title: Downregulation of splicing regulator RBFOX1 compromises visual depth perception

doi: 10.1371/journal.pone.0200417

Figure Lengend Snippet: A and B. The Tg(UBC-cre/ERT2)1Ejb transgenic mouse was used to generate Rbfox1 KO animals. The images (modified from www.informatics.jax.org/recombinase/specificity?id=MGI:3707333&system=sensory+organs ) show beta-galactosidase expression in ocular tissues of an adult Tg(UBC-cre/ERT2)1Ejb transgenic mouse. The rationale for using this transgene is based on a strong Cre expression in RGCs, optic nerve, in the majority of dACs, and certain types of ACs adjacent to the IPL, as well as in the cornea. These locations are most relevant to study the effect of Rbfox1 downregulation on visual function. C-E. Colocalization of Rbfox1 with Rbpms (C), calbindin (D) and Rbfox2 (E) in retinas of wild-type and Rbfox1 KO animals. Very few Rbfox1-positive cells in the GCL were detected. Less dramatic (compared to the GCL), but evident downregulation of Rbfox1 is also observed among ACs in the INL. D. Calbindin immunoreactivity is decreased in Rbfox1 KO retinas; almost no calbindin staining is observed in the INL and very few calbindin-positive cells are present in the GCL. E. Rbfox2 expression in the GCL cells appears to be increased. F. Light microscopic examination of epoxy resin-embedded specimens also failed to identify any change in retinal morphology two months after Rbfox1 downregulation. G. Expression of glial fibrillary acidic protein (GFAP) in Rbfox1 KO retinas. GFAP staining was used to evaluate potential “stress” in the retina associated with Rbfox1 downregulation. However, no significant difference in the levels of GFAP immunoreactivity between control and Rbfox1 KO retinas was observed. OS, photoreceptor outer segments; IS, photoreceptor inner segments; ONL, outer nuclear layer; OPL, outer plexiform layer; INL, inner nuclear layer; IPL, inner plexiform layer; GCL, ganglion cell layer.

Article Snippet: We used Rbpms as a marker for RGCs [ ] and calbindin (immunogen—purified bovine cerebellum calbindin D-28K protein) to identify ACs, dACs and horizontal cells (HCs), although ACs in the INL and dACs in the GCL show variable expression of this marker [ , ].

Techniques: Transgenic Assay, Modification, Expressing, Staining, Control