Arabidopsis 25K OciChip™

Arabidopsis thaliana is the organism of choice for basic research in plant biology. The genomic sequence of A. thaliana with a rather small size of 125 Mb has been completed in the year 2000. Although it is not grown commercially, it is favored among scientists as it develops, reproduces, and responds to stress and disease in much the same way as many crop plants. Moreover, with a rapid life cycle, efficient transformation methods, and a large number of mutant lines, it offers important advantages for basic research in plant genetics and molecular biology.

Plant biologists have relied upon A. thaliana to help them understand the genetics, physiology, development, and structure of plants in general. Therefore, A. thaliana has become the number one model organism to investigate, e.g., how plants react to general environmental stresses such as darkness, pathogens, cold, drought, or salt, by orchestrating gene expression accordingly.

Pack includes:

• Manual
• Hybridization buffer
• QC protocol

Unique Advantages

• Highest specificity: all probes are cross-checked with Smith – Waterman and BLAST
• Oligo probe QC by MALDI-TOF MS
• Extensive quality controls
• Combine with Hybridization Service for fastest results

Discover the advantage of having this array as a starter array / kit to establish an exciting, new technology in your lab without using expensive full genome arrays in the learning phase.

Zebrafish 14K OciChip™

Zebrafish is a research model system for vertebrate developmental genetics, diseases, biological pathways, and toxicological mechanisms. The transparency of developing zebrafish embryo allows one to trace the movement of individual cells, and thereby follow the development of organs such as skin, bone, muscle, heart, and kidney, and the circulatory, hematopoietic, and central nervous systems. The most powerful and unique feature of zebrafish is that it is a vertebrate model organism in which large-scale forward mutagenesis screens can be performed with relative ease.

There are mutations available in over 2,000 genes essential for embryonic development in zebrafish. Zebrafish 14K OciChip™ array comprising 14067 zebrafish genes is an important tool for general biomedical research. Oligonucleotides were calculated using 1800 zebrafish gene sequences from the NCBI and a database of 12768 putative open reading frames (ORF). The ORFs were established in-house using NCBI zebrafish EST sequence information.

Pack includes:

• Manual
• Hybridization buffer
• QC protocol

Unique Advantages

• Highest specificity: all probes are cross-checked with Smith – Waterman and BLAST
• Oligo probe QC by MALDI-TOF MS
• Extensive quality controls
• Combine with Hybridization Service for

Discover the advantage of having this array as a starter array / kit to establish an exciting, new technology in your lab without using expensive full genome arrays in the learning phase.

*Additional EST clustering and annotation information. NCBI zebrafish ESTs were clustered with Paracel’s transcript assembler (PTA 2.5.9). ORFs were annotated using framefinder (ESTate package 0.5.0) combined with protein similarity searches using BLASTP. Databases searched included genpept (release 128) and pir nref (release 1.0).

E. coli K12 V2 OciChip™

For a long time, Escherichia coli has served as an important model organism in studying fundamental cellular and molecular processes. Analyzing reactions of the organism to ecological influences and physiological changes will provide more information. In addition, E. coli is important for clinical and medical science.

E. coli K12 V2 OciChip™ array contains 4,288 gene specific oligonucleotide probes representing the complete E. coli (K12) genome. E. coli K12 OciChip™ array allows you to analyze simultaneously the expression of all E. coli genes in one single hybridization experiment. By analyzing regulation of gene expression under different conditions, you will obtain more information, e.g., on gene function and gene clustering.

Pack includes:

• 2 Slides (minimum order size)
• Manual
• Hybridization buffer
• QC protocol

Unique Advantages

• Gene specific HPSF® oligonucleotide probes
• High reproducibility
• Extensive quality controls
  - Probes by MALDI-TOF MS
  - Arrays by SYBR® Green
  I staining and random hybridization

Discover the advantage of having this array as a starter array / kit to establish an exciting, new technology in your lab without using expensive full genome arrays in the learning phase.

E. coli 0157 OciChip™

E. coli 0157 OciChip™ array is a hybrid array comprising three different E. coli strains. The array consists of 6176 50-mer oligonucleotides specific for E. coli strain K12 (MG1655), E. coli strain O157:H7 (EDL 933) and E. coli strain O157:H7 (RIMD0509952 / VT2-Sakai), the latter being isolated in the Sakai outbreak in Japan in 1996.

Oligonucleotides specific for each of these strains have been designated by the acronyms B (E. coli K12 strain MG1655), E (E. coli O157:H7 strain RIMD 0509952 / VT2-Sakai) and Z (E. coli O157:H7 strain EDL 933). A scheme of the oligonucleotide specificities for the respective strains is shown in the array manual.

E. coli 0157 OciChip™ array serves as an important tool to understand the evolutionary relationship between these closely related species. E. coli O157:H7 is a member of the enterohemorrhagic (EHEC) E. coli group, producing shiga-like toxin. Shiga-like toxin producing E. coli can cause sporadic cases and outbreaks of food borne diseases such as diarrhea, hemorrhagic colitis, and the hemolytic-uremic syndrome (HUS). The toxin is a protein that causes severe damage to intestinal epithelial cells. Whole genome expression profiles of pathogens generated with the E. coli 0157 OciChip™ array provides a basis to identify targets for drug design, to investigate mechanisms of drug action and to predict and characterize adverse effects of new drugs. In addition, mechanistic roles of genes in the pathogenesis of disease and virulence genes that promote colonization or tissue damage can be identified.

Pack includes:

• Manual
• Array pattern information
• Hybridization buffer
• Cy5 labeled Arabidopsis control oligos (in hybridisation buffer)

Unique Advantages

• Gene specific HPSF® oligonucleotide probes
• High reproducibility
• Extensive quality controls
  - Probes by MALDI-TOF MS
  - Arrays by SYBR® Green
  I staining and random hybridization

H. pylori OciChip™

Helicobacter pylori is a member of the gastric Helicobacter species causing chronic active, chronic persistent, and atrophic gastritis in adults and children. H. pylori infection can also cause duodenal and gastric ulcers. Infected persons have a 2- to 6-fold increased risk of developing gastric cancer. Approximately two-third of the world population is infected with this bacterium.

H. pylori OciChip™ array contains 1877 oligonucleotide probes covering the genomes of the two H. pylori strains J99 and 26695. Of these 1307 oligonucleotides match with genes of both strains 292 oligonucleotides are specific for H. pylori 26695 and 278 oligonucleotides are specific for H. pylori J99. Expression profiling with the complete H. pylori OciChip™ array can help identify target genes for medical research purposes that are involved in chronic infection, inflammation, and malignant diseases such as cancer.

Pack includes:

• 2 Slide (minimum order size)
• Manual
• Hybridization buffer
• QC protocol

Unique Advantages

• Gene specific HPSF® oligonucleotide probes
• High reproducibility
• Extensive quality controls
  - Probes by MALDI-TOF MS
  - Arrays by SYBR® Green
  I staining and random hybridization

S. pneumoniae OciChip™

Streptococcus pneumoniae is a Gram-positive bacterium commonly found in the nose and throat. This bacterium is the most common cause of meningitis, sepsis, and middle ear infections in children, as well as pneumonia in immunocompromised individuals and the elderly. S. pneumoniae OciChip™ array contains 2018 oligonucleotide probes covering the whole S. pneumoniae transcriptome. Whole genome expression profiles of pathogens generated with the complete S. pneumoniae OciChip™ array provides a basis to identify targets for drug design, to investigate mechanisms of drug action, and to predict and characterize adverse effects of new drugs. In addition, mechanistic roles of genes in the pathogenesis of disease and virulence genes that promote colonization or tissue damage can be identified.

Pack includes:

• Manual
• Array pattern information
• Hybridization buffer

Unique Advantages

• Gene specific HPSF® oligonucleotide probes
• High reproducibility
• Extensive quality controls
  - Probes by MALDI-TOF MS
  - Arrays by SYBR® Green
  I staining and random hybridization

C. jejuni OciChip™

C. jejuni is a microaerophilic, Gram-negative bacterium that causes bacterial gastroenteritis and can survive in a low oxygen environment. It is a principal cause of bacterial food-borne diarrhoeal disease. C. jejuni infection might also be linked to Guillain-Barré Syndrome, a neurological disease that results in neuromuscular paralysis.

C. jejuni OciChip™ array contains 1632 oligonucleotide probes covering the whole C. jejuni transcriptome. Whole genome expression profiles of pathogens generated with the complete C. jejuni OciChip™ array provides a basis to identify targets for drug design, to investigate mechanisms of drug action and to predict and characterize adverse effects of new drugs. In addition mechanistic roles of genes in the pathogenesis of disease and virulence genes that promote colonization or tissue damage can be identified.

Pack includes:

• Manual
• Array pattern information
• Hybridization buffer
• Cy5 labeled Arabidopsis control oligos (in hybridization buffer)

Unique Advantages

• Gene specific HPSF® oligonucleotide probes
• High reproducibility
• Extensive quality controls
  - Probes by MALDI-TOF MS
  - Arrays by SYBR® Green
  I staining and random hybridization

Yeast OciChip™

The first chromosome sequenced completely was yeast chromosome III in 1992. Between 1994 and 1996 sequence information of all other 15 yeast chromosomes were made public.

This information is well documented by three complementary databases:

• MIPS (http://www.mips.biochem.mpg.de)
• SGD (http://genome-www.stanford.edu)
• YPD (http://www.proteome.com)

These sources deliver a non-ambiguous and non-redundant nomenclature for open reading frames (ORFs), proteins, and genes. The large amount of genome information as well as its key status as a model organism inspired many researchers to start genome wide expression profiling with yeast. Yeast OciChip™ array contains 6,250 gene specific oligonucleotide probes representing the complete Saccharomyces cerevisiae genome on a single array.

Pack includes:

• 2 Slides (minimum order size)
• Manual
• Hybridization buffer
• QC protocol

Unique Advantages

• Gene specific HPSF® oligonucleotide probes
• High reproducibility
• Extensive quality controls
  - Probes by MALDI-TOF MS
  - Arrays by SYBR® Green
  I staining and random hybridization

Ocimum Starter Kits

Ocimum Starter Kits give you an overview on how to perform a successful microarray experiment starting with the preparation of your RNA, to hybridization, to data evaluation. Each starter kit comprises about 100 selected genes, each represented by one gene specific oligonucleotide probe on this array and chosen to investigate differential gene expression typical for the respective organism.

Kits include:

• Arrays – 2 x 5 Slides
• Hybridization buffer – 5ml
• GeneFrames – 10 pcs

Request for Quote:

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These simple experiments can be realized in every lab. All you have to do is to follow the instructions in the user manual (enclosed in the kit). For experimental details, see the OciChip Manuals.

Available Kits

• Arabidopsis Starter Kit
• E. coli Starter Kit V2
• Mouse Starter Kit
• Rat Starter Kit
• Zebrafish Starter Kit

We regularly offer microarray workshops allowing hands-on experience for those interested in an introductory course in microarray techniques. These workshops are limited to eight participants to ensure individual training with our scientists for best results.