Cyto 2
Cyto 2
Cyto 2
Part 2
Terminal Interstitial
Pericentric Paracentric
inversion inversion
Recombinant Isochromosomes
chromosomes
Normal variable chromosomal features/
Heteromorphisms
(NOTE: generally, these are not included in the karyotype)
Normal 9’s
Variation in length (+ or -)
• 1qh+ • Yqh+
• 9qh- • 13ps+
• 16qh+ • 21pstk-
• inv(2)(p11.2q13)
• inv(9)(p12q13)
• Yqs
Designation of Regions, Bands, Sub-bands
Idiogram
Sub-band 400 550 700
Region Band
Telomere Example: 4p15.3
(pter) 6
p arm
5.3
1 5 5.2
43 5.1
Centromere 21
12 0
1 3
1
3 24
2 5
q arm
6
7
8
1.1
3 1 1.2
2 1.3
3
4
Telomere 5
(qter) Chr. 4
Differences in level of resolution by sample type
350 400-425 550-700
BM AF POC PB
Standard Nomenclature for Karyotype Designation
General designation includes:
• Chromosome number (count)-based on #centromeres
– Expressed relative to the ploidy level
• Sex chromosome constitution
– Use +/- for acquired sex chromosome aneuploidy only
• List of abnormalities present
– Ordered by chromosome number (sex chromosomes, then
autosomes 1-22) and abnormality type (numerical
abnormalities/aneuploidies, then structural abnormalities, listed
alphabetically and by arm/band, low to high)
• Multiple cell lines
– Mosaicism: List abnormal clone(s) first, list multiple abnormal
clones from largest to smallest in size
– Chimerism: List recipient (individual’s karyotype) first
Common symbols and abbreviated terms
(constitutional studies)
• + additional normal or abnormal chromosome (trisomy)
• - loss of a chromosome (monosomy)
• add added material of unknown origin, typically resulting in a loss of
material distal to breakpoint
• del deletion
• der derivative chromosome, due to structural rearrangement(s)
• dic dicentric chromosome
• dup duplication
• dn de novo (not inherited)
• i isochromosome (composed of two identical chromosome arms)
• idic isodicentric chromosome (isochromosome w/ two centromeres)
• ins insertion
• inv inversion
• mar marker chromosome, unknown origin
• mat maternal origin
• mos mosaic (multiple cell lines/clones present)
• pat paternal origin
• r ring chromosome
• rob Robertsonian translocation, a whole arm translocation between
acrocentric chromosomes
• t translocation
• / separates clones (for mosaic karyotypes)
• // separates clones (for chimeric karyotypes)
• [ ] indicate number of cells (for mosaic or chimeric karyotypes)
Structural Abnormalities Description
(Illustrated by Examples)
• Terminal vs interstitial
– add(11)(q23)
– del(4)(p16.3)
– dup(17)(p11.2p13)
• Interchromosomal vs intrachromosomal
– t(9;22)(q34;q11.2)
– inv(3)(q21q26.2)
– ins(2)(q13p11.2p14)
• Whole chromosome arm rearrangements
– i(12)(p10)
– der(1;7)(q10;p10)
– rob(13;14)(q10;q10)
• Combination of abnormalities
– 47,XY,+8,t(8;14)(q24;q32)
– der(7)del(7)(p11.2)del(7)(q22)
– mos 45,X[12]/46,X,idic(X)(p11.22)[8]
Nomenclature Practice:
Structural Abnormalities
Abnormal, constitutional
Female
p13
p11.2
Abnormal, constitutional
46,XX,del(11)(p11.2p13)
Female
p13
p11.2
Abnormal, constitutional
q22
q24.1 q32
Abnormal, constitutional
47,XXY,ins(13;12)(q32;q22q24.1)
q22
q24.1 q32
Abnormal, constitutional
Abnormal, constitutional
45,XX,rob(14;15)(q10;q10)
Abnormal, constitutional
Female
q11.2
q23.3
Abnormal, constitutional
47,XX,+der(22)t(11;22)(q23.3;q11.2)
Female
q11.2
q23.3
Structural abnormalities
Deletions Duplications Insertions
Terminal Interstitial
2q37 del
BDMR BWS/RSS
11p15 dup
pat/mat
7q11.23 del
Potocki-
Shaffer WAGR * Pallister-
Killian
11p11.2 11p13 del
(WBS)/dup Langer- del
Giedion Jacobsen
8q24 del 11q24 del
Inv dup 15
RB1 *PWS/AS Rubenstein Smith-Magenis/
Miller-Dieker 17p13.3
del
13q14 15q11-13 -Taybi Potocki-Lupski
del del pat/mat 16p13.3 del 17p11.2
HNPP/CMT1A
& dup mat del/dup 17p11.2 del/dup
Image modified from Gardner, Sutherland and Shaffer Chromosome Abnormalities and Genetic Counseling 4th ed (2011)
Incidence of Recurrent Deletion and
Duplication Syndromes
Key
NAHR-prone regions
Deletion disorders
Del/dup disorders
DxD=allelic HR
Balanced
recombinants
DxA=non-allelic HR
Unbalanced Duplicated
recombinants
Deleted
Balanced
Sensitivity Culturing Unbalanced abs?
Technique Resolution Global?
(mosaicism) required? abs? Structural
info?
G-banded 3-5 Mb
10-15% Yes Yes Yes Yes
chromosomes (550 bands)
Terminal Interstitial
46,t(11;22)
47,+der(22),t(11;22)
(Emanuel syndrome)
Tertiary trisomy
3:1 segregation
Terminal Interstitial
Trivalent
Balanced Unbalanced
Gametes
Key
• Active X = White
• Inactive X = Gray *
• * = XIST
Pericentric Paracentric
inversion inversion
Recombinant Isochromosomes
chromosomes
Recombinant chromosome arises from a
parental pericentric inversion
1 1
2 6
3 5
4 4
3
5
2
6 7
7
7
1
6
2 5
3 4
4 3
5
6 2
7 7
Image source: http://www.ucl.ac.uk/~ucbhjow/bmsi/bmsi_7.html
rec(8)dup(8q)inv(8)(p23.1q23.1)
Cytogenetics in Cancer
Balanced Unbalanced
Karyotyping + + + + +/- + - - -
FISH + + + + + + + - -
CMA (SNP) + + - + + + + + +
• Chromosomal rearrangements
(translocations, inversions)
– A gene fusion creating a chimeric
protein
– Upregulation of gene expression
by position effect
der(9)
9
22
der(22)
The t(9;22)(q34;q11) reciprocal
translocation
(Proto-oncogene)
BCR/ABL1 protein is a constitutively active
tyrosine kinase
Hereditary
cancers
Tumor