Nucleotide repeats emerge as one of the most prolific classes of genetic variations. They have the propensity to in-crease in length across generations, and have been implicated in at least 65 known neurological/ neurodevelop-mental and neuromuscular conditions. Simultaneous analysis of all these nucleotide repeats is now possible through the cutting-edge methodologies recently developed that are the long-read sequencing and the optical genome mapping. Investigator propose to test these methodologies in patients carrying expansions in those repeats and to determine the capacity of these technics to detect novel repeats in patients with no genetic diagnosis yet.
Hereditary neurological diseases caused by nucleotide repeat expansions present significant clinical challenges due to overlapping clinical symptoms and extensive genetic diversity, often resulting in complex diagnostic journeys for patients. In addition, current diagnostic approaches rely on sequential genetic analyses of targeted loci across multiple consultations and dispatching samples to various molecular genetic laboratories. The recent advancement of long-read sequencing technology from Oxford Nanopore and of the optical Genome Mapping from Bionano offer promising and innovative avenues for investigating nucleotide repeat expansions. This project has then 2 main objectives, to enhance the genetic diagnosis of such mutational events and to identify novel candidate genes or repetitive sequences in neurogenetic conditions. These methodologies will be applied to 120 carriers of established repeat expansions to help better define the threshold and composition of large repeats leveraging the main advantage offered by each technics to allow full analysis of these repeat sequences. In the case of long read sequencing, an enrichment methodology will be used (adaptive sampling). In order to be sure to analyze 120 patients, investigators will recruit 180 patients (90 in each group). The second objective relies on the fact that a substantial portion of patients still lack a molecular diagnosis in neuro-genetics. Investigator aim to uncover new abnormal repeat expansions using the same technologies in a separate cohort of patients affected by candidate neurological conditions for these repeats, where genomic data have not revealed mutations or expansions in known genes. The consortium will analyze samples from 30 families affected by a candidate neurogenetic condition
Study Type
INTERVENTIONAL
Allocation
NON_RANDOMIZED
Purpose
DIAGNOSTIC
Masking
NONE
Enrollment
304
Skin biopsy is a minimally invasive procedure. It will be performed during a follow-up visit. The skin biopsy is a technically simple procedure performed using a 5-mm diameter punch under local anesthesia. The procedure can be carried out in a consultation room under strict aseptic conditions and takes a total of approximately 15 minutes.The biopsy may be performed at several anatomical sites but is generally carried out on the inner aspect of the arm. It will be performed by a resident or a senior registrar. The skin biopsy sample is placed in a vial containing physiological saline and sent at room temperature.
Blood sampling is a routine biological procedure performed under the same conditions as during a follow-up consultation. Pain, redness, or bleeding may occur at the puncture site. If the required samples are not already available, they will be collected. The maximum volumes collected will be as follows and will represent a total volume of less than two tablespoons (for participants weighing less than 30 kg, only one tube of each type will be collected)
CHU Bordeaux - Hôpital Pellegrin
Bordeaux, France, France
AP-HP Hôpital Pitié-Salpêtrière
Paris, France, France
Diagnosis by NGS technology
The first primary endpoint is the ability of the proposed Next-Generation Sequencing (NGS) technology to establish the diagnosis of each neurogenetic disease studied, defined as the presence or absence of the disease, in comparison with the currently used reference method (gene-specific Polymerase Chain reaction (PCR)). NGS analysis will be performed blinded to the results previously obtained on the same samples using the reference technique, taking into account the disease under investigation and the number of repeat amplifications.
Time frame: Inclusion visit
Molecular diagnosis
Identification a molecular diagnosis in families undergoing a diagnostic odyssey, by demonstrating both the presence of repeat expansions in affected family members and the absence of such expansions in unaffected individuals within the same family.
Time frame: Inclusion visit
New complex haplotypes
Identification of new complex haplotypes
Time frame: Inclusion visit
Deleterious biological effect
Identification of a deleterious biological effect of one or more newly identified variants in the new gene(s) of inter-est.
Time frame: Inclusion visit
This platform is for informational purposes only and does not constitute medical advice. Always consult a qualified healthcare professional.