title: Agilent custom Kluyveromyces lactis 11K Array [G2509F]
status: Public on Oct 01 2011
contact.city: Thiverval-Grignon
contact.first: Jean-Marie
contact.last: Beckerich
contact.email: Jean-Marie.Beckerich@grignon.inra.fr
contact.address: Campus Agroparistech
contact.country: France
contact.institute: INRA
contact.phone: 00 33 01 30 81 54 43
organism: Kluyveromyces lactis
description: catalog number G2509F (november 2007), Custom Microarray GE 8X15K Custom Microarray GE 8x15K 60mer, sold in multiples of 1-1'x3' slides, 8 microarrays per slide
  oligoset design: /K. lactis /NRRL Y-1140 genome version 3 (S. Casaregola, personal  communication) was used as a reference for microarray design. Probe  design was performed using ROSO software completed with in-house  scripts. ROSO takes a number of parameters into account to design  effective oligonucleotide probes: (i) uniqueness among the genomes and  lack of cross-hybridization against exclusion genomes; (ii) melting  temperature (Tm); (iii) lack of secondary structures; and (iv) distance  from the 3' end of the gene. ROSO was run on the 5,270 candidate target  genes. Our objective was to obtain one probe with a length of between 40  and 60 nucleotides per target gene. Probes have to be in exons and are  preferably located at the 3' end of the gene. The genomes of  /Arthrobacter aurescens /TC1/, Arthrobacter sp./ (strain FB24),  /Corynebacterium glutamicum,/ /Lactococcus lactis/ IL1403, /Debaryomyces  hansenii/ CBS767, /Brevibacterium aurantiacum/ATCC9174 (formerly /B.  linens/) and /Yarrowia lipolytica/ CLIB99 were used as exclusion  genomes, creating prospects for transcriptomic ecosystem studies.
manufacture_protocol: See manufacturer's website