Nature Genetics: Sequencing of the genus Arabidopsis

Selected Paper:

http://www.nature.com/ng/journal/v48/n9/full/ng.3617.html

Sequencing of the genus Arabidopsis identifies a complex history of nonbifurcating speciation and abundant trans-specific polymorphism

Abstract

The notion of species as reproductively isolated units related through a bifurcating tree implies that gene trees should generally agree with the species tree and that sister taxa should not share polymorphisms unless they diverged recently and should be equally closely related to outgroups. It is now possible to evaluate this model systematically. We sequenced multiple individuals from 27 described taxa representing the entire Arabidopsis genus. Cluster analysis identified seven groups, corresponding to described species that capture the structure of the genus. However, at the level of gene trees, only the separation of Arabidopsis thaliana from the remaining species was universally supported, and, overall, the amount of shared polymorphism demonstrated that reproductive isolation was considerably more recent than the estimated divergence times. We uncovered multiple cases of past gene flow that contradict a bifurcating species tree. Finally, we showed that the pattern of divergence differs between gene ontologies, suggesting a role for selection.

https://www.newmarketscientific.com/plantantibodies

Publication using two Agrisera antibodies (RbcL & ATPaseB) from Newmarket Scientific

Selected Paper:

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4854705/

This publication used Anti-RbcL and Anti-ATPaseB antibodies from the Agrisera range. https://www.newmarketscientific.com/category/plant-research

Light Modulates the Biosynthesis and Organization of Cyanobacterial Carbon Fixation Machinery through Photosynthetic Electron Flow

Abstract

Cyanobacteria have evolved effective adaptive mechanisms to improve photosynthesis and CO₂ fixation. The central CO₂-fixing machinery is the carboxysome, which is composed of an icosahedral proteinaceous shell encapsulating the key carbon fixation enzyme, Rubisco, in the interior. Controlled biosynthesis and ordered organization of carboxysomes are vital to the CO₂-fixing activity of cyanobacterial cells. However, little is known about how carboxysome biosynthesis and spatial positioning are physiologically regulated to adjust to dynamic changes in the environment. Here, we used fluorescence tagging and live-cell confocal fluorescence imaging to explore the biosynthesis and subcellular localization of β-carboxysomes within a model cyanobacterium, Synechococcus elongatus PCC7942, in response to light variation. We demonstrated that β-carboxysome biosynthesis is accelerated in response to increasing light intensity, thereby enhancing the carbon fixation activity of the cell. Inhibition of photosynthetic electron flow impairs the accumulation of carboxysomes, indicating a close coordination between β-carboxysome biogenesis and photosynthetic electron transport. Likewise, the spatial organization of carboxysomes in the cell correlates with the redox state of photosynthetic electron transport chain. This study provides essential knowledge for us to modulate the β-carboxysome biosynthesis and function in cyanobacteria. In translational terms, the knowledge is instrumental for design and synthetic engineering of functional carboxysomes into higher plants to improve photosynthesis performance and CO₂ fixation.

This publication used Anti-RbcL and Anti-ATPaseB antibodies from the Agrisera range. https://www.newmarketscientific.com/category/plant-research

NEXTflex™ Small RNA-Seq Kit v3

The NEXTflex™ Small RNA-Seq Kit v3 uses patented technology to provide a significantly reduced-bias small RNA library prep for Illumina sequencing platforms with both gel-free and low-input options.

Bioo Scientific'’s approach to reducing ligation-associated bias uses adapters with randomized bases at the ligation junctions, resulting in greatly decreased bias compared to standard protocols. This reduction in bias results in data that more accurately represents abundances of the small RNAs in the starting material.

In addition, this reduction of bias allows more miRNAs to be detected with fewer total reads, increasing efficiency and reducing cost for small RNA sequencing.

PAGE purification, required for traditional small RNA library prep, is tedious, time consuming, limits throughput, and prevents start-to-finish automation. The NEXTflex Small RNA-Seq Kit v3 allows for gel-free small RNA library prep.

This is possible thanks to the dual approach used for adapter-dimer reduction. Unprecedented reduction of adapter-dimer formation allows completely gel-free small RNA library prep when starting with ≥200 ng of total RNA. 

Libraries prepared with the NEXTflex Small RNA-Seq kit v3 have a higher proportion of reads mapping to miRNAs.

Watch our slideshare presentation below and download a copy of the manual here.

Reduced Bias Small RNA Library Prep with Gel-Free or Low-Input Options. 

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StressMarq - Antibodies

StressMarq primary antibodies cover many different research areas and are available conjugated to 17 different fluorescent dyes and enzymes. At the moment conjugated primary antibodies are currently available at a 15% discount until the end of June 2016. Some featured antibodies are listed below, however we have many more so please use the search box above to look for your specific antibody. Featured Antibodies: • Anti-HSP70 • Anti-DNA/RNA Damage, 15A3 • Anti-ENaC Beta • Anti-Aquaporin 4 • Anti-Rhodopsin, 4D2 • Anti-PSD95, 6G6 • Anti-TLR4 • Anti-Amyloid Oligomers (A11) • Anti-Nitrotyrosine, 39B6
StressMarq conjugated primary antibodies are now available at a 15% discount until the end of June 2016. Quote SM616 on your order to get the discount. Questions? Contact us.

Exosome Research

The HansaBioMed range provides essential tools for researchers in the field of exosome research, including the ExoTEST platform, a proprietary immune-based solution for capture, quantification and characterisation of exosomes from biological fluids.

Follow the links below to find further details of a specific HansaBioMed products. Or if you would like to request more information, please use our contact form.

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Exosome Standards

• Lyophilized and purified exosomes from plasma
• Lyophilized and purified exosomes from urine
• Lyophilized and purified exosomes from cell culture supernatant
• Lyophilized and purified exosomes from serum
• Lyophilized and purified exosomes from saliva

Exosome capture and enrichment from biological fluids

• EXO-Prep One Step Exosome Isolation

• Immunoplates for exosome capture
• Immunoplates for general exosome capture
• Immunoplates for Tumor-derived exosome capture and enrichment
• Immunoplates for Neural-derived exosome capture and enrichment
• Immunoplates for Glial-derived exosome capture and enrichment
• Immunoplates for Monocyte and Platelet-derived exosome capture and enrichment  

• Immunobeads for Exosome capture from Plasma, Urine or Serum
• Immunobeads for Exosome capture from culture supernatant
• Immunobeads for Exosome capture from Tumors

EXO-Prep, Immunoplates and Immunobeads

• EXO-Prep One Step Exosome Isolation
• Immunoplates for exosome capture
• Immunoplates for general exosome capture
• Immunoplates for Tumor-derived exosome capture and enrichment
• Immunoplates for Neural-derived exosome capture and enrichment
• Immunoplates for Glial-derived exosome capture and enrichment
• Immunoplates for Monocyte and Platelet-derived exosome capture and enrichment
• Immunobeads for Exosome capture from Plasma, Urine or Serum
• Immunobeads for Exosome capture from culture supernatant
• Immunobeads for Exosome capture from Tumors

Exosome Capture and Quantification from Biological fluids

• ExoTEST - Exosome capture & quantification from PLASMA/URINE/SALIVA
• ExoTEST - Exosome capture & quantification from SERUM
• ExoTEST - Exosome capture & quantification from CULTURE SUPERNATANT
• ExoTEST - Tumor Exosome enrichment & quantification

All of the ExoTEST kits are also available as "Proteomic Test Kits" containing just 3 strips of wells instead of the 12 and a lower price for trial purposes or lower volume usage.

We can also provide custom-made ready-to-use kits for specific exosome immunocapture and quantification. Please use our contact form or email us with details of your requirements

FACS Analysis of Exosomes (Exo-FACS Kits)

• Kits for analysis of exosomes from plasma, serum, urine, saliva, culture supernatant 

Kits for DNA/RNA extraction from Exosomes

• Basic Exosome RNA Kits
• Exosome Total RNA Extraction Kits
• Tumor Exosome Total RNA Extraction Kits
• Exosome DNA Extraction Kits

Exosome Related Antibodies

• Anti CD9 Antibodies
• Anti Mouse CD9 Antibody
• Anti CD63 Antibodies
• Anti CD41 Antibodies
• Anti CD44 Antibodies
• Anti CD81 Antibodies
• Anti Caveolin1 Antibodies
• Anti ALIX Antibodies
• Anti TM9SF4 Antibodies
• Anti flotillin Antibodies
• Anti Rab5 Antibodies
• Anti HSP70 Antibodies
• Anti TM9SF3 Antibodies
• Anti TSTA3 Antibodies

NEXTflex Rapid DNA-Seq Library Prep Kits 2 hour protocol

The NEXTflex Rapid DNA-Seq Kit offers a streamlined 2 hour (or less) library prep protocol. Follow this link for more information on the NEXTflex Rapid DNA-Seq Kit or visit our NGS Page for details of the full range.

The NEXTflex™ Rapid DNA-Seq Kit (Part of the Bioo Scientific Next Generation Sequencing range) allows researchers to build sequencing-ready libraries for use on Illumina’s sequencing platforms starting with as little as 1 ng of DNA in two hours or less. This kit is ideal for use with genomic DNA, FFPE samples, ChIP DNA and low input clinical samples.

The NEXTflex Rapid DNA-Seq Kit is highly flexible in terms of sample requirements, accommodating a 3-log range of input DNA amounts from 1 ng to 1 µg. A bead-based, gel-free size selection protocol eliminates the need for agarose gels in size selection, and the availability of up to 96 unique adapter barcodes facilitates high-throughput applications. The NEXTflex Rapid DNA-Seq Kit incorporates “Enhanced Adapter Ligation Technology”, which facilitates ligation of long adapters, resulting in longer and more diverse sequencing reads. Bioo Scientific’s NEXTflex Ligation and Polymerase reaction mixes ensure the highest quality libraries for superior performance.

Flexible Multiplexing Options:
The NEXTflex™ Adapters are long, annealed adapters containing indexed sequences that offer an improved multiplexing workflow and flexible setup. These barcodes can be used with single, paired-end and multiplex reads. The NEXTflex Rapid DNA-Seq Kit is designed to be used with the NEXTflex™ and NEXTflex-96™ DNA Barcodes for 10 ng or more of starting material or the NEXTflex™ and NEXTflex-96™ ChIP-Seq Barcodes for less than 10 ng of starting material. These barcodes are available in sets of 6, 12, 24, 48 and 96 unique indexed adapters.

Key Points:

• Flexible amounts of input DNA from 1 ng to 1 µg
• Fast workflow requiring 2 hours or less, with minimal hands-on time
• Enhanced Adapter Ligation Technology offers a larger number of unique sequencing reads
• Creates libraries with less bias
• Automation-friendly workflow is compatible with liquid handlers
• Flexible barcode options - Up to 96 unique barcodes
• Prepare single, paired-end and multiplexed genomic DNA libraries

Follow this link for more information on the NEXTflex™ Rapid DNA-Seq Kit or visit our NGS Page for details of the full Next Generation Sequencing range.

NGS Library prep kits and barcodes

Bioo Scientific NEXTflex Sequencing Kits & Barcodes provide enhanced adapter ligation giving the best ligation and amplification efficiency available in a library preparation kit. This ensures you maximise library diversity and see more of your sample in sequencing. Nextflex Rapid Kits offer streamlined protocols with minimal hands on time, and have validated automation protocols for PerkinElmer's Sciclone NGS Workstation.

Validated automation protocols for PerkinElmer's Sciclone NGS Workstation for the NEXTflex DNA & RNA kits

We now have validated automation protocols for using our NEXTflex DNA-Seq and RNA-Seq library prep kits on PerkinElmer's Sciclone NGS Workstation. Follow the links below to view the our presentation or the protocols for each kit. Presentation: Improving NGS Library Prep Automation on the Sciclone NGS Workstation Protocols: NEXTflex Rapid DNA-Seq Sciclone Automation Guide NEXTflex Rapid Directional qRNA-Seq Sciclone Automation Guide NEXTflex Rapid Directional RNA-Seq Sciclone Automation Guide NEXTflex Rapid RNA-Seq Sciclone Automation Guide If you have any questions or need further information or support please let us know by using our contact form or emailing us at tech@nktscientific.com. For more information on the full range of Next Generation Sequencing library prep kits please visit our Next Generation Sequencing page.

HOT FIREPol EvaGreen qPCR Supermix

Solis BioDyne's new 5x HOT FIREPol EvaGreen qPCR Supermix includes a new, highly effi cient qPCR buff er which when combined with the EvaGreen dye, delivers a mastermix with truly impressive performance on any platform.

The Mix has eveything needed for your reaction. You just add the template and primers to provide you with highly sensitive qPCR.

Highly Sensitive and Effective qPCR:

• Superior sensitivity on low copy number targets

• UNG treatment capable due to dUTP addition

• Suitable for fragments up to 500 bp

• Suitable for GC-rich targets

• EvaGreen chemistry: Highly sensitive dye

PLUS:
No loss of activity should your polymerase be left on the bench over night!
Solis BioDyne polymerases are even shipped at room temperature so there are
NO dry-ice shipping charges.

Request your free sample today!

NextExpress Protein Expression Kit

The NextExpress Protein Expression Kit is a proprietary system for large-scale protein expression in eukaryotic cells. It provides superior expression of membrane proteins and high yields of cytoplasmic and secretory proteins.

The NextExpress Protein Expression Kit is also compatible with HEK293 and CHO cell expression systems, and is highly adaptable to commercial serum-free medium.



HEK 293F suspension cells were transfected with pDNA containing viral ORF (encoding a viral capsid protein p72 with transmembrane domains) using NextExpress™ Protein Expression Reagent. 72 hours post-transfection cells were lysed and membrane protein was detergent solubilised. Protein was purified using 2 step affinity and ion-exchange chromatography.

Key Features and Benefits:
• Unique system for robust expression and purification of membrane proteins in eukaryotic cells.
• 2 to 10-fold higher yield than other transfection reagents
• High cytoplasmic and secretory protein yields
• Compatible with HEK293 and CHO cell expression systems
• Simple, rapid protocol with fewer steps
• Easy to optimise due to excellent cell viability
• Superior adaptability in serum-free medium
• Significant cost saving compared to other reagents

Pricing is available on this link or for additional information or a copy of the datasheet please use our contact form or email us at tech@nktscientific.com.