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Table 1 Characteristics of probes used in chicken chromosome mapping of MDV integrations.

From: Chromosomal integration of an avian oncogenic herpesvirus reveals telomeric preferences and evidence for lymphoma clonality

Chromosome Clone Identity Insert Size (Kb) Features (NCBI Accession) Marker Position (Mb)* References
6 CH261-169D14 226 SCD (AJ297918/X60465) 18.5 [50]
7 CH261-95H15 158 SP5 (NM_001044684) 19.7  
8 CH261-84K8 235 ZNF326 (NM_001006533) 15.6  
9 TAM31-29A21 - TR (AY312571) 21.5 [37]
10 TAM33-42N22 179 NEO1 (U07644) 1.30  
11 TAM32-22B17 181 ADL210 (G01630) 12.8  
12 TAM32-43M12 118 MCW198 (G31980) 12.7  
13 TAM32-5E13 173 MCW322 (G32078) 16.3  
14 TAM32-2I7 225 ADL200 (G01621) 39.8  
15 TAM32-87J1 - MCW226 (G31998) 2.4  
16 ETS rDNA 3 NOR q arm [26, 51]
17 TAM31-22I10 - GSN (AF042795) 9.1  
18 TAM32-14L7 78 SFRS2 (X62446) 4.2  
19 TAM32-21A11 164 ACACA (X77240) 8.5  
20 TAM32-13H1 - BMP7 (AF223970) 11.6  
21 TAM32-12A6 - TUS0022 (AI979776) 2.5  
22 TAM32-13C2 202 CRMP62 (U17277) 0.5  
23 TAM32-27O5 - ADL299 (G01708) 17.8  
24 TAM32-54P15 219 APOA1 (M96012) 5.2  
25 TAM32-49A10 149 LEI0345 (AJ240692) 1.7  
26 TAM32-40J16 152 MCW209 (G31986) 2.1  
27 TAM32-76B6 169 MCW233 (G31915) 1.9  
28 TAM32-4G3 167 ADL299 (G01751) 4.3  
W TAM32-55E18 - CW01 (D85614) q arm [24, 52]
LG E50C23 TAM32-2A12 - LEI0336 (AJ240683) N/A  
  MDV: Md11gDc1.2 178§ N/A N/A [18]
  MDV: P89 43 N/A N/A [29]
  MDV: SN16 42 N/A N/A [29]
  1. CH = Children's Hospital Oakland Research Institute, CH261 = EcoRI BAC library.
  2. TAM = Texas A&M University, TAM31 = BamHI, TAM32 = EcoRI, TAM33 = HindIII BAC libraries [26, 31].
  3. ETS = external transcribed spacer of the 18S-5.8S-28 S rRNA gene repeat (rDNA).
  4. BAC locations and features were obtained from US Poultry Genome Project 'Database of BACs Assigned to Chicken Genes and Markers' (http://poultry.mph.msu.edu/resources/resources.htm, May 2006 version) and/or UCSC Genome Browser (http://genome.ucsc.edu, Chicken May 2006 assembly).
  5. Features = Genes/Markers and Genbank accession numbers (in parentheses).
  6. Probes for GGA 1-5 and the Z were not needed because these chromosomes are easily identified by their morphological features
  7. *Position refers to the start position of the BAC or gene/marker on the chromosome in the May 2006 chicken assembly (UCSC Genome Browser). In two cases the chromosomal coordinates are unknown, but the chromosome arm location is indicated.
  8. Obtained from the UCSC Genome Browser.
  9. Insert size was estimated using the UCSC Genome Browser and Chicken FPC http://www.bioinformatics.nl/gbrowse/cgi-bin/gbrowse/ChickFPC as described in O'Hare and Delany 2009.
  10. §Based on the Md5 strain (GenBank accession no. AF243438) [17].
  11. "-" = unknown
  12. N/A = not applicable