July 2019 E.C.A

ISSN 2074-0786

http://www.e-c-a.eu

No. 44 • JULY 2019 E.C.A. - EUROPEAN CYTOGENETICISTS ASSOCIATION NEWSLETTER No. 44 July 2019

No. 44 July 2019 E.C.A. Newsletter

The E.C.A. Newsletter is the official organ Contents Page published by the European Cytogeneticists th Association (E.C.A.). For all contributions to and The 12 European Cytogenomics Conference, 2 publications in the Newsletter, please contact the Salzburg, 6-9 July 2019 editor. Guidance for reporting the interpretation of 8 cytogenomic test results in haematological Editor of the E.C.A. Newsletter: neoplasms

Konstantin MILLER E.C.A. Structures 12 Institute of Human Genetics Hannover Medical School - Board of Directors 12 30623 HANNOVER - Committee 13 GERMANY Tel.: +49 511 532 35 72 Fax : +49 511 532 6555 - Scientific Programme Committee 13 E-mail: [email protected] E.C.A. News 13

E.C.A. Fellowships 13 Editorial committee: Minutes of the E.C.A. Board meeting 14 J.S. (Pat) HESLOP-HARRISON E.C.A. Permanent Working Groups 15 Department of Genetics University of Leicester European Advanced Postgraduate Course 17 LEICESTER LE1 7RH in Classical and Molecular Cytogenetics (EAPC) UK Nimes Course 2019 19 Tel.: +44 116 252 5079 Fax.: +44 116 252 2791 E-mail: [email protected] Goldrain Course in Clinical Cytogenetics 20

Kamlesh MADAN Cytogenetics Laboratory Dept. of Clinical Genetics (Post zone S6P) Leiden Univ. Medical Center P.O.Box 9600 2300 RC LEIDEN THE NETHERLANDS Tel.: +31 72 51 28 953 Fax : +31 71 52 68 276 E-mail: [email protected]

Mariano ROCCHI President of E.C.A. Dip. di Biologia Campus Universitario Via Orabona 4 70125 BARI ITALY Tel.: +39 080 544 3371 E-mail: [email protected]

V.i.S.d.P.: M. Rocchi ISSN 2074-0786

E.C.A. - EUROPEAN CYTOGENETICISTS ASSOCIATION NEWSLETTER No. 44 July 2019

The 12th European Cytogenomics Conference Salzburg, 6-9 July 2019

COMMITTEES

E.C.A. Committee

Mariano ROCCHI - President

Kamlesh MADAN - First Vice-President

Pat HESLOP - HARRISON - Second Vice-President

Konstantin MILLER - General Secretary

Jean-Michel DUPONT - Treasurer

Scientific Programme Committee

Mariano ROCCHI - Chair

Claudia HAFERLACH

Dieter KOTZOT

Damien SANLAVILLE

Joris VERMEESCH

Orsetta ZUFFARDI

Organizing Secretariat

DEKON Congress & Tourism Sultan Selim Mah. Eski Büyükdere Cad. Hümeyra Sok. No.12 34415 Seyrantepe - Kağıthane - Istanbul - TURKEY

Telephone : +90 212 347 63 00

Fax : +90 212 347 63 63

E-mail : [email protected] or [email protected]

Visit www.dekon.com.tr for more information

3 E.C.A. - EUROPEAN CYTOGENETICISTS ASSOCIATION NEWSLETTER No. 44 July 2019

Scientific Programme

SATURDAY, 6 July 2019 14:00-17:00 Permanent Working Groups (for details see pages 15/16) 17:00-17:50 Symposium: Molecular Cytogenetics (BMC-Springer/Nature) symposium dedicated to the memory of Prof. Yuri Yurov 18:00-19:00 Opening lecture. Chairs: Mariano Rocchi - Dieter Kotzot Joris Vermeesch: Somatic chromosomal mosaicim

SUNDAY, 7 July 2019 08:30-10:15 Plenary session 1 - Recent advances in cytogenomics Chairs: Mariano Rocchi – Thierry Lavabre-Bertrand 08:30-09:00 Claudia Haferlach: The future of cytogenomics in the diagnostics 09:00-09:30 Michael Speicher: Liquid biopsies in patients with cancer 09:30-10:15 Selected abstracts 09:30-09:45 Pascal Chambon: A simple, universal and cost-efficient dPCR method for the targeted analysis of copy number variations 09:45-10:00 Laïla El Khattabi: Next Generation Mapping, a novel approach that enables the detection of unbalanced as well as balanced structural variants 10:00-10:15 Paolo Reho: Low-coverage whole genome sequencing in plasma circulating cell- free DNA analysis: the Turner syndrome experience 10:15-10:45 Coffee break 10:45-11:15 Plenary session 2 - 50 Years of chromosome banding Chairs: Kamlesh Madan - José Garcia-Sagredo 10:45-11:15 Felix Mitelman: Chromosome banding: the end of the Dark Ages 11:15-11:45 Darío G. Lupiáñez: Structural variation in the 3D genomic era: implications for disease and evolution 12:00-14:30 Poster session and Satellite Symposia 14:30-15:45 Concurrent Sessions Concurrent Session 1 - 3D chromatin organization and dynamics Chairs: Jean-Michel Dupont - Darío G. Lupiáñez 14:40-15:05 Alexandre Reymond: Genome architecture and diseases: the 16p11.2 paradigm 15:05-15:30 Mario Nicodemi: Polymer physics predicts the impact on chromatin 3D structure of disease associated structural variants 15:30-15:45 Selected Abstract Mireia Solé: Chromosome radial positioning in spermatogenic germ cells from Mus musculus Concurrent Session 2 - Clinical cytogenomics Chairs: Damien Sanlaville - Orsetta Zuffardi 14:40-15:05 Nicole de Leeuw: CNV and diseases: an overview in constitutional diagnostics

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15:05-15:30 Malte Spielmann: The effect of structural variation in the three-dimensional genome 15:30-15:45 Selected Abstract Jesper Eisfeldt: From cytogenetics to cytogenomics, whole genome sequencing as a comprehensive genetic test in rare disease diagnostics 15:45-16:15 Coffee break 16:15-17:20 Concurrent Sessions Concurrent Session 3 - Structural organization of the human genome Chairs: Joris Vermeesch - Nicole de Leeuw 16:15-16:40 Megan Y. Dennis: The role of duplicated genes in human brain evolution and disease 16:40-17:05 Francesca Antonacci: Inversion variants in the human genome 17:05-17:20 Selected Abstract Anna Lindstrand: Cytogenetically visible inversions are formed by multiple molecular mechanisms Concurrent Session 4 - Human infertility Chairs: Elisabeth Syk Lundberg - Sevilhan Artan 16:15-16:40 Pierre Ray: Male infertility in humans, interest of whole exome sequencing 16:40-17:05 Terry Hassold: Aneuploidy in humans: new insights into an age-old problem 17:05-17:20 Selected Abstract Harita Ghevaria: Next generation sequencing detects premeiotic errors in human oocytes and provides evidence of genetic influence 17:20-18:30 Poster session

MONDAY, 8 July 2019 08:30-10:30 Plenary session 3 - Tumor Cytogenomics I Chairs: Felix Mitelman – Roberta Vanni 08:30-09:00 Fredrik Mertens: Clonal evolution among different sarcoma subtypes 09:00-09:30 David Gisselsson: Treatment resilience of cancer through clonal evolution 09:30-10:30 Selected Abstracts 09:30-09:45 Roberto Valli: Shwachman-Diamond Syndrome, expression arrays, clonal chromosome anomalies 09:45 10:00 Paola Caria: Three-Dimensional Telomere Organization in papillary thyroid cancers 10:00-10:15 Jordi Camps: Patterns of acquired uniparental disomy reveal biallelic Inactivation of tumor suppressor genes in gastrointestinal cancers and in colorectal advanced adenomas 10:15-10:30 Sabrina Haslinger: ZNF384 gene fusions in B-ALL: A report of fifteen Austrian cases secured by systematic FISH and array screening 10:30-11:00 Coffee break 11:00-12:15 Concurrent Sessions

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Concurrent Session 5 - Tumor cytogenomics II Chairs: Claudia Haferlach - Harald Rieder 11:00-11:30 Liran Shlush: Clonal evolution and risk factors - from age-related clonal hematopoiesis to AML 11:30-12:00 Floris Foijer: Single cell DNA sequencing to quantify karyotype heterogeneity in cancer 12:00-12:15 Selected Abstract Karla Svobodova: Identification of cryptic aberrations allows more accurate prognostic classification of patients with myelodysplastic syndromes and clonal evolution Concurrent Session 6 - Animal and plant cytogenomics I Chairs: Pat Heslop-Harrison - Valerie Fillon 11:00-11:30 Alain Pinton: Chromosome rearrangements and meiosis in pig 11:30-12:00 Ilya Kirov: Plant repeatome: cytogenetic, transcriptomic and proteomic aspects 12:00-12:15 Selected Abstract Alessandra Iannuzzi: Cytogenetic and genomic assays in river buffalo (Bubalus bubalis, 2n=50) cows raised in urban and rural areas 12:15-14:30 Poster session and Satellite Symposia 14:30-15:45 Plenary session 4 - Chromosomal Imbalances Chairs: Mariano Rocchi - Konstantin Miller 14:30-14:55 Orsetta Zuffardi: The trisomy legacy: from numerical to structural abnormalities 15:00-15:30 Iben Bache: Long-term outcomes of prenatally detected de novo balanced chromosomal rearrangements 15:30-15:45 Selected Abstract Aafke Engwerda: Phenotype-genotype analysis in a large cohort of 85 individuals with a terminal 6q deletion 15:45-16:15 Coffee break 16:15-17:30 Concurrent Sessions Concurrent Session 7 - Animal and plant cytogenomics II Chairs: Trude Schwarzacher - Leopoldo Iannuzzi 16:15-16:45 Raquel Chaves: Satellite evolution in Bovidae 16:45-17:15 Vincent Colot: Transposable element mobilization: where, how and with what consequences? 17:15-17:30 Selected Abstract Fengtang Yang: Characterisation of complex genomic structure and variation by high-resolution fibre-FISH: an overview Concurrent Session 8 - Accreditation, quality control and education Chairs: Konstantin Miller - Albert Schinzel 16:15-16:45 Thomas Liehr: European Certification and continuous education of clinical laboratory geneticists working in cytogenetics

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16:45-17:15 Thomas Eggermann: Next generation sequencing and quality assurance: challenges and opportunities 17:15-17:30 Selected Abstract Ron Hochstenbach: What should laboratory specialists in clinical genetics know about chromosomes ten years from now? 17:30-18:30 Poster session 18:30 E.C.A. General Assembly 20:00 Conference Dinner of E.C.A.

Tuesday, 9 July 2019 09:00-10:30 Plenary session 5 - Prenatal diagnosis Chairs: Damien Sanlaville - Maria Rosario Pinto Leite 09:00-09:25 Rossa Chiu: Cell-free DNA analysis as a tool for “non-invasive cytogenetics” 09:25-09:50 Leen Vancoillie: The landscape of pathogenic copy number variations in healthy, reproducing females 09:50-10:20 Selected Abstracts 09:50-10:05 Ming Chen: A silicon-based coral-like nanostructured microfluidics to isolate rare cells in human circulation: validation by SK-BR-3 cancer cell line and its utility in circulating fetal nucleated red blood cells 10:05-10:20 Celine Dupont: Six years of molecular cytogenetic in prenatal diagnosis: benefits, lessons and perspectives. A new approach according to observation of ultrasound abnormalities 10:20-10:40 Coffee break 10:40-11:25 Plenary session 6 Chair: Jean-Michel Dupont 10:40-11:10 Frank Pellestor: Chromoanagenesis: cataclysms behind complex chromosomal rearrangements 11:10-11:25 Selected Abstract Adriana Di-Battista: Balanced X-autosome translocations and premature ovarian failure are associated with altered expression of growth factors, junction organization and immune pathways 11:25-12:15 Keynote lecture Chair: Mariano Rocchi Stylianos Antonarakis: Chromatin and single cell genomics, to understand the gene dosage imbalance in aneuploidies 12:15 Closing Ceremony: Mariano Rocchi

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Guidance for reporting the interpretation of cytogenomic test results in haematological neoplasms

Rack KA, GenQA, John Radcliffe Hospital, Oxford, UK van den Berg E, Department of Genetics University Medical Center Groningen, University of Groningen, Groningen, The Netherlands Haferlach C, MLL-Munich Leukemia Laboratory, Munich, Germany Beverloo HB, Department of Clinical Genetics, Erasmus MC, University medical center Rotterdam, Rotterdam, The Netherlands Espinet B, Laboratori de Citogenètica Molecular, Servei de Patologia, Grup de Recerca, Translacional en Neoplàsies Hematològiques, Cancer Research Program,Hospital del Mar, Barcelona, Spain Foot NJ, Viapath Genetics laboratory, Guys Hospital, London, UK Martin K, Department of Cytogenetics, City Hospital Campus, Nottingham, UK O’Connor S, Haematological Malignancy Diagnostic Service, St James’s University Hospital, Leeds, UK Schoumans J, Laboratoire d’oncogénomique, Service d’hématologie Centre Hospitalier Universitaire, Vaudois, Switzerland Talley P, Haematological Malignancy Diagnostic Service, St James’s University Hospital, Leeds, UK Stioui S, Laboratorio di Citogenetica e Genetica Molecolare - Laboratorio Analisi, Humanitas Research Hospital, Rozzano, Milan, Italy Zemanova Z, Center of Oncocytogenetics, Institute of Clinical Biochemistry and Laboratory Diagnostics, General University Hospital and First Faculty of Medicine, Charles University, Prague, Czech Republic Isabelle Luquet, Laboratoire d’Hématologie, IUCT-O, Toulouse, France Hastings RJ, GenQA, John Radcliffe Hospital, Oxford, UK

Specific recommendations for reporting the should provide clear concise information and results of diagnostic genetic testing have long reports should be avoided as this previously been published1. However the detracts from the clarity of the results. focus has been on germline testing and Genetic testing can be undertaken for although many of the reporting requirements diagnostic, prognostic and predictive reasons are the same, the considerations for the or at follow up for disease monitoring and interpretation of acquired abnormalities are this should be addressed in the report. different. General guidance on report format and content is also provided in the Relationship of any abnormalities found to recommendations for cytogenomic testing in the referral reason 2 haematological neoplasms . Review of cyto- The report should include a description of the genomic test reports of laboratories parti- abnormality identified and the results should cipating in external proficiency testing be interpreted with respect to the referral schemes has highlighted a large variation in reason, or any subsequent information the content and detail of the interpretation of received regarding the patient (e.g. the results. This document aims to provide information subsequently communicated by supplementary specific guidance for the referring clinician). For haematological format and information to be included in the samples the final diagnosis may or may not result interpretation. The interpretation be known at time of sample collection and

8 E.C.A. - EUROPEAN CYTOGENETICISTS ASSOCIATION NEWSLETTER No. 44 July 2019 consequently the referral reason can be a state that the abnormality detected confirmed diagnosis, a presumptive neither supports nor excludes the diagnosis, a differential diagnosis or a diagnosis indicated on the referral form description of clinical symptoms or findings. and should provide information of any  Where a diagnosis is confirmed, the association with other specific disease report should state whether the result is entities. As a further example, in a consistent with this diagnosis. It is patient referred for CLL, two indepen- unhelpful to discuss the association of dent clones may be detected, one with a the abnormality with other disease trisomy 12 and one with a monosomy 7. entities as it may bring the diagnosis into Information pertaining to both abnormal- question. lities should be provided on the report.  Where the diagnosis is unconfirmed the  In some cases the abnormality detected report should state whether the result may be suspected to have a constitu- supports the proposed/presumptive tional rather than acquired origin and diagnosis. When there is a differential this should be discussed in the report. diagnosis the report should discuss the Depending on the nature of the ab- result in relation to the different normality, and considering any repro- neoplasms considered. ductive implications for the patient’s  Where no specific diagnosis has been extended family, confirmation of the stated on the referral card, and only patient’s constitutional cytogenomic tes- clinical information has been provided, it ting can be suggested. is advised to contact the clinician or the  The most recent WHO (currently 2017) pathology/haematology laboratory for nomenclature should be used in relation more information before reporting. to the disease category, where appro- However, when this is not possible, the priate. report should provide information on its association with specific disease entities. Reporting normal results  In some cases an abnormality may be The probability of detecting an abnormality identified that is inconsistent with the depends on the pathology and methodology referral reason. It is known that some used. Laboratories should ensure that the patients with a haematological malig- most appropriate testing strategy is under- nancy have a second haematological taken. Interpretation of normal test results neoplasm and it is not unusual in these needs careful consideration. cases to identify an abnormal clone  Where an abnormal clone cannot be containing recurrent abnormalities asso- excluded, for example where insufficient ciated with one or both neoplasms. For metaphases have been obtained or cell example, in a patient referred for CLL, a enrichment is not optimal (such as low clone with a deletion 20q may be purity of CD138+), the report should detected. In such cases it is advised to include a statement to this effect. In contact the clinician for further inform- addition, appropriate additional testing ation before reporting. However, when should be recommended in the report if this is not possible, the report should not already undertaken.

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 Where a prognostic test is performed the and national recommendations need be taken report should clearly state that no high into account when deciding whether to risk/ adverse prognostic factors were include this information in the report. For detected. example, inclusion of this information may not be required when it will be summarised Reporting complex results in an integrated multidisciplinary report or  Reporting complex test results can be inclusion may be unhelpful in cases where challenging and it is important that the the report is given directly to the patient. In information provided is succinct and the latter case, information regarding clear to the reader of the report. prognosis should be reported with caution as  The report should summarise the main there are always exceptions on a patient diagnostic or prognostic abnormalities in level: e.g. cases with CLL and TP53 a clear statement or in tabular form, if aberrations that do perform well, etc. possible near the beginning of the report. Similarly, inclusion of predictive response to  It should be clear which pertinent therapy in the report can be unhelpful as prognostic factors have been tested and choice of adequate therapeutic option by the the report should state whether high risk clinician needs to take into account the or established abnormalites have been patients co-morbidities and other clinical detected or not detected (for example issues. Where laboratory policy is not to TP53 deletion or mutation not detected). include this information in the report the  The complex nature of the test result laboratory may choose to make this should be highlighted although a full information, and any new predicitive data, description of all the abnormalities is not available to the clinician outside the report required. If included these should be (telephone, extra fact sheet, link to laboratory listed elsewhere in the report so as not to website, separate appendix). detract from the major findings. Where prognostic information is included or  Some pathologies, such as multiple has been specifically requested a prognostic myeloma, demonstrate high intraclonal statement must be provided. variability and the FISH signal patterns observed can be very heterogeneous. It is  When no informative prognostic genetic recognised that such cases can be bio-markers have been identified this difficult to report and therefore complex should be stated. signal patterns do not need to be  Where the prognostic information is described in detail. However, the report currently contentious this should be should state an atypical heterogeneous highlighted and referenced in the report. signal pattern was detected showing  Where the abnormality is a predictive gene rearrangement, gain, loss or marker for response to therapy it is amplification. recommended to mention it in the report.  Prognostic information provided should Prognostic and predictive information relate to robust data from multiple It is good practice to include prognostic and publications/international trials/trial predictive information in the report. protocols or widely accepted prognostic However, it is recognised that local policy systems exists (e.g. IPSS-R in MDS,

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ELN recommendations and MRC Follow up testing prognostic system in AML), or evidence The interpretation of follow up testing must from large randomised control trials of relate the current results to the previous test patients undergoing similar relevant results and the previous test reference treatment or meta-analysis/systematic number and sample date should be provided review of multiple studies. in the report.  Multiple concordant studies can be used and should be referenced. Technical reports and provisional reports for  Small and isolated studies should not be discussion at multi discipline meetings used to derive prognosis although this In some circumstances a provisional or information can be given in the report if abbreviated report is issued prior to put in context and referenced. discussion at a multi-disciplinary team  It should be noted that the prognostic meeting (MDT) or before the results of other impact of a distinct marker relates to the ongoing testing are available. If a purely specific treatment regimen used in the technical report is issued it should be made respective study, e.g. prognosis of APL clear that the interpretation of the results will with t(15;17)(q24;q21) is only be incorporated into a final integrated report. favourable if treatment protocols

including ATRA and/or arsenic trioxide Where abbreviated results are reported for are used. integration into a MDT-report, the  Cytogenomic results are just one information in the abbreviated MDT result component of establishing the patients must be consistent with the full test report. overall prognosis. For some diseases a The summary report must be authorised by a combined scoring system is used to suitably qualified healthcare scientist. A full establish risk that incorporates risk report should also be sent to the referring scores from multiple different tests. For health specialist. these neoplasms it is recommended to

state the cytogenetic risk score in the References report to avoid any confusion with the overall risk score which may be 1. Claustres M, et al., (2013) Recommendations for reporting results of diagnostic genetic different. testing (Biochemical, Cytogenetic and Molecular Genetic). On behalf of the ESHG Recommendations Quality Committee. Eur. J. Hum. Genet., 22:160-170 Where additional testing, not already under- 2. Rack K, et al (2019) European taken, is required to clarify the significance Recommendations and Quality Assurance for of the results this should be stated on the Cytogenomic Analysis of Haematological report. neoplasms. Leukemia https://doi.org/10.1038/s41375-019-0378-z

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E.C.A. STRUCTURES

E.C.A. BOARD OF DIRECTORS

Sevilhan ARTAN Thierry LAVABRE-BERTRAND Maria Rosario PINTO LEITE Eskisehir Osmangazi University Laboratoire de Biologie Cellulaire Cytogenetics Laboratory Medical Faculty et Cytogenetique Moleculaire Centro Hospitalar de Trás-os- Department of Medical Genetics Faculté de Médecine Montes e Alto Douro Meselik Avenue Kennedy Av. da Noruega 26480 ESKISEHIR 30900 NÎMES 5000-508 VILA REAL TURKEY FRANCE PORTUGAL Tel.: +90 22 22 39 37 71 Tel.: +33 4 66 68 42 23 Tel.: +35 1 25 93 00 500 Fax : +90 22 22 39 29 86 Fax: +33 4 66 68 41 61 Fax: +35 1 25 93 00 537 E-mail: [email protected] E-mail: [email protected] E-mail: [email protected]

Juan Cruz CIGUDOSA Nicole de LEEUW Harald RIEDER Centro Nacional de Department of Human Genetics Institut fuer Humangenetik und Investigaciones Oncológicas Radboud University Nijmegen Anthropologie (CNIO) Medical Centre Universitaetsstraße 1 Melchor Fernández Almagro, 3 P.O. Box 9101 40225 DUESSELDORF 28029, MADRID 6500 HB NIJMEGEN GERMANY SPAIN THE NETHERLANDS Tel.: +49 211 8110689, Tel. :+34 91 22 46 900, ext 3340 Tel.: +31243614105 Fax : +49 211 8112538 Fax : +34912246923 Fax : +31243668751 E-mail: E-mail: [email protected] E-mail: [email protected] [email protected]

Jean-Michel DUPONT Kamlesh MADAN Mariano ROCCHI Laboratoire de Cytogénétique Cytogenetics Laboratory Emeritus Professor Groupe Hospitalier Cochin Dept. of Clinical Genetics S-06-P Dip. di Biologia Saint Vincent de Paul Leiden Univ. Medical Center Campus Universitario 123 Bd Port Royal P.O.Box 9600 Via Orabona 4 75014 PARIS 2300 RC LEIDEN 70125 BARI FRANCE THE NETHERLANDS ITALY Tel.: +33 1 584 113 31 Tel.: +31 72 51 28 953 Tel.: +39 080 544 3371 Fax : +33 1 584 113 55 Fax : +31 71 52 68 276 E-mail: E-mail.: E-mail: [email protected] [email protected] jean-michel.dupont@ cch.aphp.fr

José M. GARCIA-SAGREDO Konstantin MILLER Elisabeth SYK LUNDBERG Medical Genetics Department Institut für Humangenetik Dept. of Clinical Genetics Hospital Ramon y Cajal Medizinische Hochschule Karolinska Hospital Carretera de Colmenar Km 9.100 30623 HANNOVER 17176 STOCKHOLM 28034 MADRID GERMANY SWEDEN SPAIN Tel.: +49 511 5323572 Tel.: +46 85 17 75 380 Tel.: +34 91 3368334 Fax : +49 511 5326555 Fax : +46 83 27 734 Fax : +34 91 3368791 E-mail: E-mail: E-mail: [email protected] [email protected] [email protected]

J.S. (Pat) HESLOP-HARRISON Felix MITELMAN Roberta VANNI Department of Genetics Department of Clinical Genetics Dept. of Biomedical Sciences University of Leicester University of Lund, BMC C13 Biochemistry, Biology and LEICESTER LE1 7RH 22185 LUND Genetics Unit UK SWEDEN University of Cagliari Tel.: +44 116 252 5079 Tel.: +46 46 17 33 60 09142 MONSERRATO (CA) Fax.: +44 116 252 2791 Fax: +46 46 13 10 61 ITALY E-mail: [email protected] E-mail: [email protected] Tel.: +39 07 06 75 41 23 Fax : +39 07 06 75 41 19 E-mail: [email protected] 12 E.C.A. - EUROPEAN CYTOGENETICISTS ASSOCIATION NEWSLETTER No. 44 July 2019

COMMITTEE

President M. Rocchi General Secretary K. Miller 1st Vice President K. Madan Treasurer J.-M. Dupont 2nd Vice President P. Heslop-Harrison

ECC SCIENTIFIC PROGRAMME COMMITTEE

Mariano Rocchi (Chair) Damien Sanlaville Claudia Haferlach Joris Vermeesch Dieter Kotzot Orsetta Zuffardi

E.C.A. News

 The next European Cytogenomics Conference will take place in Salzburg, Austria, from 6 to 9 July 2019.  Renewal of the Board in 2019. The following members are due for replacement or re-election in 2019 at the General Assembly: S. Artan (Turkey), J. Cigudosa (Spain), N. de Leeuw (The Netherlands), K. Miller (Germany), F. Mitelman (Sweden).

E.C.A. Fellowships

 The E.C.A. offers two Fellowships for each of the following courses:  European Advanced Postgraduate Course in Classical and Molecular Cytogenetics to be held in Nîmes March 2020.  Goldrain Course in Clinical Cytogenetics to be held in Goldrain Castle (South Tyrol, Italy) September 2020.  The fellowships include the course fees and the accommodation during the lectures in Nîmes or in Goldrain but do not include travel expenses for either of the courses or for accommodation during the practical training for the Nîmes course.  Applications with CV, list of publications and a letter of support should be addressed to the appropriate course organizer. The Educational Advisory Council of the E.C.A. will select the successful candidates.

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MINUTES OF THE E.C.A. BOARD MEETING, NÎMES, MARCH 2019

A meeting of the E.C.A. Board of Directors was Hochstenbach (Netherlands) and Joan held on 16th March 2019 at Hotel Vatel, Nîmes. Blanco Rodriguez (Spain) would be added to a list for the Ballot. Sevilhan The Board Members present were: José M. Artan, Konstantin Miller, and Felix Garcia-Sagredo, Jean-Michel Dupont (Treasurer), Mitelman, being eligible for re-election, Pat Heslop-Harrison (2nd Vice-President), will also be proposed on that list. Elisabeth Syk Lundberg, Konstantin Miller 4. 2019 ECC Salzburg (General Secretary), Felix Mitelman, Thierry a. The programme and final issues for the Lavabre-Bertrand, Harald Rieder, Mariano ECC 2019 Salzburg were discussed. Rocchi (President), and Roberta Vanni. b. By 15th March 2019, 201 abstracts had been received; some more are expected. Apologies were received from Sevilhan Artan, c. It is expected that the present number of Juan Cruz Cigudosa, Kamlesh Madan (First commercial sponsors will increase. Vice-President), Nicole de Leeuw, and Rosario d. Abstract evaluation and procedures for Pinto Leite. selection of oral presentations was discussed. The President, Mariano Rocchi, opened the e. Rosario Pinto Leite and José M. Garcia- meeting at 15.00. Sagredo will coordinate the five Poster Prizes awarded for recent or ongoing 1. The Minutes of the meeting of the ECA thesis research, based on recommend- Board of Directors of the Association held dations of appointed experts. on 21st September 2018 in Hôpital Cochin, f. The menu and arrangements for the Paris were approved. Stiegl Keller conference dinner were 2. Reports from Officers discussed and approved. a. The Secretary General reported on the g. Harald Rieder discussed the state of the Association and its organization of the PWG meetings. administration. The assistance of Dekon 5. The future presentation of the E.C.A. continues to be appreciated. There was conferences and the added value of an extended discussion on how to Membership of the E.C.A. were discussed. increase the impact and reach of the EC 6. Courses Congress. Jean-Michel Dupont discussed the b. The Treasurer reported on the finances changes in the “European Advanced of the Association. Postgraduate Course in Classical and 3. 2019 General Assembly Salzburg and Board Molecular Cytogenetics 2019” (Nîmes election Course) with respect to examinations and a. Juan Cruz Cigudosa and Nicole de certificates for the students. Leeuw will leave the board. Valid 7. The Board will meet following the Annual nominations have been received to join General Meeting in Salzburg. the board, and it was agreed that Ron The President closed the meeting at 18.16. .

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E.C.A. PERMANENT WORKING GROUPS (PWG)

PWG: CLINICAL AND MOLECULAR PWG: CYTOGENETICS OF APPROACHES TO CYTOGENETIC HAEMATOLOGICAL MALIGNANCIES. SYNDROMES. Co-ordinators: Co-ordinators: Bertil JOHANSSON

Dept. of Clinical Genetics - University Hospital Conny van RAVENSWAAIJ 22185 LUND, SWEDEN Dept. of Human Genetics CB51 Tel.: +46 46 17 33 69, Fax :+46 46 13 10 61 University Medical Centre Groningen E-mail: [email protected] P.O.Box 30.001 9700 RB GRONINGEN, THE NETHERLANDS Harald RIEDER Tel.: +31 503617229, Fax: +31 503617231 Institut fuer Humangenetik und Anthropologie E-mail: [email protected] Universitaetsstraße 1 40225 DUESSELDORF, GERMANY Cristina SKRYPNYK Tel.: +49 211 8110689, Fax : +49 211 8112538 Al-Jawhara Centre for Molecular Medicine and E-mail: [email protected] Inherited Disorders

Arabian Gulf University The PWG will hold a meeting on Saturday 6 July at P.O Box 26671 MANAMA the Salzburg ECC, 15:00-16:00, Mozart 4+5 hall KINGDOM OF BAHRAIN (Ground Floor). E-mail: [email protected]

ECARUCA Co-ordinator Daily Management Team Nicole de LEEUW PWG: CANCER CYTOGENETICS, Department of Human Genetics (848) SOLID TUMOR STUDIES.

Radboud University Nijmegen Medical Centre Co-ordinators: P.O. Box 9101 Roberta VANNI 6500 HB NIJMEGEN, THE NETHERLANDS Department of Biomedical Sciences E-mail: [email protected] Biochemistry, Biology and Genetics Unit

University of Cagliari, University Campus The PWG will hold a meeting during the 12th ECA 09142 MONSERRATO (CA), ITALY conference in Salzburg open to all ECC participants: Tel. +39 07 06 75 41 23 Fax +39 07 06 75 41 19 Saturday 6 July, 15:00-16:00, Mozart 2+3 hall E-mail: [email protected] (Ground Floor). David GISSELSSON NORD

PWG: MARKER CHROMOSOMES. Lund University Dept. of Pathology, Lund University Hospital Co-ordinators: 22185 LUND, SWEDEN Thomas LIEHR E-mail: [email protected] Jena University Hospital, Friedrich Schiller University, Institute of Human Genetics The PWG will hold a meeting on Saturday 6 July at Postfach the Salzburg ECC, 16:00-17:00, Mozart 4+5 hall 07740 JENA, GERMANY (Ground Floor). Tel: + 49 3641 93 96 850, Fax: +49 3641 93 96 852 E-mail: [email protected]

Isabel MARQUES CARREIRA PWG: CYTOGENETIC TOXICOLOGY Cytogenetics and Genomics Laboratory, AND MUTAGENESIS.

Faculty of Medicine, University of Coimbra Co-ordinators: Rua Larga José M. GARCIA-SAGREDO 3004-504 COIMBRA, PORTUGAL Medical Genetics Department Tel/Fax . +351 23983886 Hospital Ramon y Cajal E-mail: [email protected] Carretera de Colmenar Km 9.100

28034 MADRID, SPAIN The PWG will hold a meeting on Saturday 6 July at E-mail : [email protected] the Salzburg ECC, 14:00-15:00, Mozart 4+5 hall (Ground Floor).

15 E.C.A. - EUROPEAN CYTOGENETICISTS ASSOCIATION NEWSLETTER No. 44 July 2019

Emanuela VOLPI PWG: QUALITY ISSUES AND TRAINING IN Faculty of Science and Technology CYTOGENETICS. University of Westminster Co-ordinators: 115 New Cavendish Street LONDON W1W 6UW, UK Ros HASTINGS E-mail: [email protected] UKNEQAS for Clinical Cytogenetics Women's Centre, John Radcliffe Hospital The PWG will hold a meeting on Saturday 6 July at OXFORD OX3 9DU, UK th the Salzburg ECC, 14:00-15:00, Trakl Hall (3 floor). Tel: +44-1865-857644

E-mail: [email protected] PWG: ANIMAL, PLANT, AND COMPARATIVE CYTOGENOMICS. Martine DOCO-FENZY

Co-ordinators: Service de génétique - Hôpital Maison Blanche 45, rue Cognacq Jay J.S. (Pat) HESLOP-HARRISON 51092, REIMS Cedex, FRANCE Department of Biology [email protected] University of Leicester LEICESTER LE1 7RH, UK Marta RODRIGUEZ DE ALBA Tel.: +44 116 252 5079 Fax.: +44 116 252 2791 Department of Genetics, E-mail: [email protected] Fundacion Jimenez Diaz Avda. Reyes Catolicos No. 2 Valérie Fillon 28040 MADRID, SPAIN Laboratoire de Génétique Cellulaire Tel.: +34 39 41 550 48 72 Institut National de la Recherche Agronomique de E-mail: [email protected] Toulouse 31326 Castanet Tolosan, France, The PWG will hold a meeting on Saturday 6 July at Tel: +33 0561285347 the Salzburg ECC, 16:00-17:00, Doppler Hall (4th E-mail: [email protected] floor).

The PWG will hold a meeting on Saturday 6 July at th the Salzburg ECC, 15:00-17:00, Trakl Hall (3 floor). PWG: CYTOGENOMICS.

Co-ordinators: PWG: PRENATAL DIAGNOSIS. Joris VERMEESCH Co-ordinators : Constitutional Cytogenetics laboratory Center for Human Genetics Seher BASARAN U.Z. Gasthuisberg Istanbul University Herestraat 49 Child Health Inst., Millet Cad. Capa 3000 LEUVEN, BELGIUM 34390 ISTANBUL, TURKEY Tel.: +32 16 34 59 41, Fax: + 32 16 34 60 60 Tel.: +90 21 26 31 1363 Fax : +90 21 26 31 1363 E-mail: [email protected] E-mail: [email protected] Anna LINDSTRAND Maria Do Rosário CARVALHO PINTO LEITE Karolinska Hospital Cytogenetics Laboratory 17176 STOCKHOLM, SWEDEN Centro Hospitalar de Trás os Montes e Alto Douro E-mail: [email protected] 5000-508 VILA REAL, PORTUGAL Tel.: +35 1259 300 537 The PWG will hold a meeting on Saturday 6 July at E-mail: [email protected] the Salzburg ECC, 14:00-15:00, Mozart 2+3 Hall (Ground floor). The PWG will hold a meeting on Saturday 6 July at the Salzburg ECC, 16:00-17:00, Mozart Hall 2+3 (Ground floor).

EUROPEAN CYTOGENETICISTS ASSOCIATION (E.C.A.) European Advanced Postgraduate Course in Classical and Molecular Cytogenetics Director: Professor Jean-Michel Dupont, Paris - France

Objectives Topics (see next page).

This course was started by Professor Jean Paul Bureau 23 years Accommodation ago and has been held in Nîmes under his directorship ever since. It is designed to provide advanced training in constitutional, A special price is available for participants in the 4-star Vatel hotel haematological, and oncological cytogenetics to medical graduates, close to the course venue. We highly recommend that all participants pharmacists, pathologists, biologists, health professionals and stay in this hotel where all the lecturers will be hosted in order to researchers, with an academic qualification. The students will be promote interactions during the course. trained to identify genetic abnormalities for diagnosis and Accommodation is included in the stand-alone course fee. prognosis, and for fundamental and applied research using both classical and molecular cytogenetic techniques. The course is co- Registration organized by E.C.A. and two French Universities, either as a Diploma (Basic = only the lectures or Advanced = lectures + Registration opens in September and closes on January 30th. practical training) or as a stand-alone course (lectures only) To register please send a letter of application together with your CV by e-mail to one of the organizers mentioned below. If you are accepted you will receive a registration form.

Prof. Jean-Michel DUPONT BERTRAND Laboratoire de Cytogénétique Laboratoire de Biologie Cellulaire Hôpital Cochin et Cytogénétique Moléculaire 27 rue du Fbg St Jacques Faculté de Médecine Montpellier- 75014 Paris, France Nîmes [email protected] Avenue Kennedy [email protected] 30900 Nîmes, France [email protected] [email protected] Registration fees Prof. Thierry LAVABRE- Diploma: From €360 to €1780 depending on the status of the student; accommodation is NOT included Practical information Stand-alone course: €1300 (E.C.A. members) or €1400 (Non E.C.A. members); accommodation is included on a shared double room Lectures: A ten-day course held in February/March of each year. basis. Extra fee for a single room on request. Venue: Faculty of Medicine, Nîmes, France. Official language: English. Practical training (only for students registered for the advanced Diploma): A training of maximum 2 months in a cytogenetic laboratory. A list of laboratories is provided during the theoretical course. Assessment : The assessment for the basic diploma will be on the basis of a one-hour examination held at the end of the lecture course. The knowledge of the students for the advanced diploma will be assessed in September by a written test (three questions) and an oral examination including a presentation (10-15 min) related to the practical training. The University will award a diploma to only those students who have passed. All participants (including those for the stand-alone course) will receive a certificate of attendance by the E.C.A. 2020 Course provisional program

This approximately 55-hour theoretical part of the course attempts to cover the field of cytogenetics in the broadest sense. The topics can be divided into the following categories:

Technical aspects: Classical Cytogenetics: Cell culture techniques; Chromosome staining methods (Q-, G-, C-, R- banding and high resolution banding); Molecular Cytogenetics: Methods and principles of Fluorescence In Situ Hybridization (FISH) and MFISH; Array CGH; Application of Massively Parallel Sequencing to Cytogenetics; Production and use of molecular probes; Database use in Cytogenetics; Laboratory quality assessment.

Clinical cytogenetics: Basics: Frequency of chromosome disorders; Cell cycle, mitosis and meiosis, gametogenesis; Heterochromatic and euchromatic variants; Numerical chromosome abnormalities; Structural abnormalities: translocations, inversions, insertions, deletions, rings, markers; Risk assessment for balanced abnormalities; X inactivation; numerical and structural abnormalities of the X and the Y; Mosaicism; Chimaeras; ISCN 2016. Clinical: Phenotype of common autosomal and gonosomal aneuploidies; Chromosome abnormalities in recurrent abortions; Cytogenetics and infertility; Microdeletion syndromes; Uniparental disomy and its consequences; Genomic imprinting; Genetic counselling and ethical issues in cytogenetics. Prenatal diagnosis: Indications, methods and interpretation; Risk assessment for chromosomal abnormalities; Non-invasive methods using foetal nucleic acids and foetal cells in maternal blood; Pre-implantation diagnosis. Cancer Cytogenetics: Molecular approach to cancer cytogenetics; Predisposition to cancer, Chromosome instability syndromes; Chromosome mutagenesis; Solid tumors; Clinical application in onco-haematology.

Other: Genome architecture; Structure of chromatin; Structure of metaphase chromosomes, Mechanisms of chromosome abberations; Origin of aneuploidy; Evolution and plasticity of the human genome; Animal cytogenetics; Plant cytogenetics.

The students will have the opportunity to evaluate the course.

The European Cytogeneticists Association offers two scholarships for the European Advanced Postgraduate Course in Classical and Molecular Cytogenetics to candidates of excellence. The Education Committee of the E.C.A. will select the suitable candidates.

The scholarship includes registration to the course and accommodation in Vatel Hotel in a shared double room but does not include travel costs. Scholarships will not be allocated to students whose registration is paid by a third party institution. E.C.A. - EUROPEAN CYTOGENETICISTS ASSOCIATION NEWSLETTER No. 44 July 2019

Nîmes Course 2019

The 23rd Advanced Postgraduate Course in contact info for further communication and Classical and Molecular Cytogenetics was a great collaboration. opportunity for us all. On our arrival at Nîmes, Professor Dupont greeted us in the hotel lobby My favorite part of the course was the city tour. near the medical university and provided us the We were so lucky to visit the beautiful city of important notes we needed. He was as Nîmes with its great Roman architecture under welcoming and kind as we could imagine. After 9 the sunshine. Our tour guide was very days of continuous courses with various topics, professional and informative. we all had a remarkable change of viewpoint in the field of Cytogenetics. During the last days of the course Professor The lectures were given in a way that everyone Dupont negotiated kindly about our field of including physicians and biologists could benefit interest with those of us who wished to pass the in his or her own way. Although some topics practical course for an advanced diploma. He were presented in less than 2 hours, they gave us stated out very clearly what our options are and a good view of the whole subject. The most how he could help us find the proper center for important point about this course is that topics this matter. And finally, making new connections are updated each year according to new findings and finding new friends along with learning so and new prospects. many different scientific topics was what I gained from this trip which is greatly appreciated and The lecturers were also very patient and cherished on my behalf. understanding. They were open to all kinds of questions. We exchanged emails and personal Golsa Shekarkhar from Iran

Participants of the 2019 Nîmes course.

19 14th Goldrain Course in Clinical Cytogenetics August 31 to September 07, 2019

LOCATION Goldrain Castle, Goldrain, South Tyrol, Italy Website of the venue: www.schloss-goldrain.it

COURSE DESCRIPTION The course is focused on phenotypic findings, mechanisms of origin and transmission, correlations of clinical patterns with chromosomal imbalance and modern ways of diagnosis of the latter. Special attention is paid to an understanding how deletions and/or duplications of chromosomal segments cause developmental defects. The course also addresses the optimal application of the diagnostic possibilities, both pre- and postnatally and including molecular cytogenetic methods for a precise determination of segmental aneuploidy.

TOPICS Dysmorphic findings in chromosome aberrations: formation and interpretation – The adult and elderly patient with a chromosome aberration – Follow-up studies in patients with chromosome aberrations – Clinical findings associated with chromosome aberrations – Microdeletion syndromes: clinical pictures – ISCN – Practical exercises in cytogenetic nomenclature – The ECARUCA database: Introduction and practical exercises – Students presentation of cases with difficult-to-interpret chromosome aberrations– prenatal cytogenetic diagnosis – Mosaics and chimeras – imprinting and uniparental disomy – FISH techniques and their interpretation – MLPA – Array-CGH: principles, technical aspects; evaluation of the results – SNP arrays – QF-PCR – Epidemiology of chromosome aberrations – Chromosome aberrations in spontaneous abortions and stillborns –Harmless chromosome aberrations – Risk assessment in structural chromosome aberrations – Optimal use of available techniques in clinical cytogenetics – Extra small supernumerary chromosomes – Genomic variation: a continuum from SNPs to chromosome aneuploidy – Use of genomic databases – Pre-implantation cytogenetic diagnosis – Ultrasound findings indicative of chromosome aberrations– Accreditation of cytogenetic laboratories –Ethical issues in the context of cytogenetic diagnosis – Non-invasive prenatal cytogenetic diagnosis.

Practical exercises will be offered with the ISCN system for chromosome aberrations and with cytogenetic and genomic databases. Students will have the opportunity to present their own observations and cytogenetic findings which are difficult to interpret. The students will have the opportunity to perform a test at the end of the course.

DIRECTOR A. Schinzel (Zurich, Switzerland) Full fee is Euro 1400 for a single FACULTY room or Euro 1200 (VAT D. Bartholdi (Berne, Switzerland), A. Baumer (Zurich, Switzerland), P. Benn (Farmington included) in a 2-bed-room. It CT, U.S.A.), R. Ciccone (Pavia, Italy), E. Klopocki (Würzburg, Germany), K. Madan includes tuition, course material, (Leiden, The Netherlands), K. Miller (Hannover, Germany), E. Syk-Lundberg (Stockholm, free access to internet during Sweden), G. van Buggenhout (Leuven, Belgium), O. Zuffardi (Pavia, Italy) and others the course, accommodation for 7 nights, all meals, beverages during the breaks and a ½ day For further questions please write directly to Albert Schinzel at [email protected] excursion. Editors-in-Chief: Thomas Liehr, Henry Heng and Yuri Yurov Impact Factor: 1.455 Molecular Cytogenetics

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