7.IV Risk Assessment Report of Biological Materials HBAL
7.IV Risk Assessment Report of Biological Materials HBAL
RESULTS OF ANALYSIS
ASSAY REPORT Quality Control of the homologous PPR Nigeria 75-1 vaccine
RE « 15-025 »
CONCLUSION
The thorough purity control of the master seed, batch 130314 of the PPRV vaccine strain Nigeria 75/1
was based on conventional tests and high throughput sequencing (NGS). Our analyses confirmed that the PPR
vaccine seed held at the CIRAD PPR reference laboratory (Montpellier, France) is free from mycoplasma, viral,
bacterial and fungal contamination. Small quantities of pestivirus NGS reads were detected but
cell-based infectivity tests demonstrated that they are not from viable viral contamination.
The full genome obtained for the PPR vaccine batch showed 13 differences in comparison to the initial
sequence. This version is accessible on GenBank for the same strain.
This new genome should be used as a reference for the PPR Nigeria 75/1 vaccine strain.
RESULTS OF ANALYSIS
ASSAY REPORT Quality Control of the homologous PPR Nigeria 75-1 vaccine
RE « 15-025 »
PPR vaccine is a live attenuated vaccine. It has been obtained by attenuation through 75 successive
passages on Vero (African green Monkey Kidney) cell culture (Diallo et al., 1989) of the PPR virus
isolated in Nigeria in 1975 (Taylor and Abegunde, 1979).
The original master PPR 75-1 LK6 Vero 74 batch 1-960823 was tested on 14/01/1997 for quality
control. The titre obtained by the method of Spearman-Karber was 104.7 TCID50 according to results
of the 23.01.1997.
The seed prepared from the original master seed on the 14/02/2012 by subculture is the master seed
PPR 75-1 LK6 Vero 75, batch 130314 and submitted to quality control from the 07/11/2012. It is
recommended that the final production cultures obtained from the master seeds should not be more
than five passages.
The quality control is based on conventional tests, including targeted nucleic acid amplification;
cell-based infectivity assays as well as next-generation sequencing (NGS) that is a powerful tool for
ensuring vaccines are free of harmful contaminants, thus providing outstanding additional
guarantees on the vaccine purity and identity. Furthermore, it gives the opportunity to verify the full
sequence of the strain using advanced sequencing technology.
The following laboratory tests have been conducted on the above mentioned samples as summarised
here below:
This report only concerns the objects submitted to analysis. This document belongs to CIRAD and shall neither be read
nor duplicated without permission.
CIRAD-BIOS-UMR117, TA A-117/E, Campus international de Baillarguet, 34398 MONTPELLIER CEDEX 5, France Tel : 33 (0)4 67 59 37 24
2/7
E-TD-09 Rapport d’essai V03 du 20/06/2018
CIRAD - Biological Systems Department
AnimalS, health, Territories, Risks, Ecosystems (ASTRE) Unit
OIE, FAO and UE Reference Laboratory for Peste des Petits
Ruminants
RESULTS OF ANALYSIS
ASSAY REPORT Quality Control of the homologous PPR Nigeria 75-1 vaccine
RE « 15-025 »
RESULTS
Identity test:
This test allows confirming the presence or the absence of PPR virus in the product.
Conventional test:
Peste des Petits Ruminants virus has been detected by PCR amplification using a one-step RT-PCR
kit from Qiagen and PPR specific primers targeting the nucleoprotein gene (Kwiatek & al., 2010)
A single band at 350pb was obtained, at the expected size.
NGS test
Nucleic acids (both RNA and DNA) from 150 µl of the vaccine batch 130314 produced in Vero
cells were extracted, retro-transcribed and amplified by Multiple Displacement Amplification
(MDA) method using random primers. No enrichment step (viral concentration) has been
implemented in the protocol. MDA is a nonspecific and low-bias amplification method (Cheval J et
al., 2011). Sequencing was achieved on Illumina HiSeq 2000 with 100 Million clusters minimum
per sample (100Mio read pairs) and a read length of 101 bp, followed by Bioinformatics and data
analysis (Quality filtering, Assembly and Taxonomic assignment of contigs and single reads). A
total of 246,381,176 reads were generated of which, 63,556,517 were analysed after quality filtering.
8,647,010 reads (13.6%) matched the PPR genome, the rest being in majority reads of Vero cell
genome and unassigned reads. Coverage of the PPR genome was 7785x, thus giving a full
consolidated PPRV genome (submitted to GenBank Accession n° KY628761).
This report only concerns the objects submitted to analysis. This document belongs to CIRAD and shall neither be read
nor duplicated without permission.
CIRAD-BIOS-UMR117, TA A-117/E, Campus international de Baillarguet, 34398 MONTPELLIER CEDEX 5, France Tel : 33 (0)4 67 59 37 24
3/7
E-TD-09 Rapport d’essai V03 du 20/06/2018
CIRAD - Biological Systems Department
AnimalS, health, Territories, Risks, Ecosystems (ASTRE) Unit
OIE, FAO and UE Reference Laboratory for Peste des Petits
Ruminants
RESULTS OF ANALYSIS
ASSAY REPORT Quality Control of the homologous PPR Nigeria 75-1 vaccine
RE « 15-025 »
Sterility control
The sterility control was undertaken on the master cell line, the sera and the master seed of the
vaccine to demonstrate that these are free of bacterial fungal and viral contaminants particularly
BVDV and mycoplasma. Absence of cytopathic effect was also verified.
Conventional tests
- Mycoplasma contamination has been investigated by PCR amplification using the 16S
Ribosomal mycoplasma universal primers for the generic detection of Mollicutes (van
Kuppeveld et al. 1994). No amplification was detected for the samples tested.
- Pestiviruses contamination has been investigated by Real-time RT-PCR using the Adiavet
BVDV Real-time kit. This commercial kit (ADI105-50) uses two primers and a probe specific
for BVDV, BDV and part of CSF virus. No amplification was detected for the samples tested.
- Bacterial contamination has been investigated by culture in SOC media and incubated 2 days at
37°C under shacking condition. No bacteria growth was detected in the media in contact with
the samples tested.
- Fungal contamination has been investigated by culture in liquid Sabouraud media and incubated
7 days at 25°C. No fungal growth was detected in the media in contact with the samples tested.
This report only concerns the objects submitted to analysis. This document belongs to CIRAD and shall neither be read
nor duplicated without permission.
CIRAD-BIOS-UMR117, TA A-117/E, Campus international de Baillarguet, 34398 MONTPELLIER CEDEX 5, France Tel : 33 (0)4 67 59 37 24
4/7
E-TD-09 Rapport d’essai V03 du 20/06/2018
CIRAD - Biological Systems Department
AnimalS, health, Territories, Risks, Ecosystems (ASTRE) Unit
OIE, FAO and UE Reference Laboratory for Peste des Petits
Ruminants
RESULTS OF ANALYSIS
ASSAY REPORT Quality Control of the homologous PPR Nigeria 75-1 vaccine
RE « 15-025 »
NGS test
After assembly of resulting reads and taxonomic assignment, the main conclusion is:
The PPR vaccine contains sequences of BVDV3: a total of 141 reads (0.00022% of the total
number of quality filtered reads) matched the BVDV3 genome. The most likely explanation is
that BVDV3 reads correspond to virus particles contained within a culture reagent such as the
foetal calf serum. To assess or refute the presence of infectious particles of live BVDV, the
vaccine was further tested using a MDBK cell-based infectivity assay followed by a Real-time
RT-PCR targeting BVDV (see next section).
Sequences from already-known endogenous retroviruses of Vero cells are also present.
No circovirus reads are detected. The contamination could have come from the protease trypsin,
which is derived from pig and used in the production of the vaccines.
A single short sequence derived from a human papillomavirus is found. The source of the viral
fragment in the vaccine is unknown but it is believed to have come from a possible
contamination during sample handling.
Infectivity assay
To confirm or refute a BVDV3 contamination, CIRAD PPR vaccine was inoculated on BVDV
sensitive cells (MDBK) and three successive passages were realised followed by RNA
extraction on each cell culture and BVDV Real-time RT-PCR analysis using the Adiavet kit.
To be sure that this commercial kit.detects BVDV type 3, a corresponding RNA positive control
was included.
BVDV type 3 RNA positive control was well detected (Ct value of 29.8), evidencing the
efficacy of the commercial kit for this type of pestivirus.
RRT-PCR analysis of all extracted RNA after successive passages on MDBK did not exhibit
the presence of viral contamination, while the housekeeping gene was still detected (Ct value
from 23.3 to 23.71).
This report only concerns the objects submitted to analysis. This document belongs to CIRAD and shall neither be read
nor duplicated without permission.
CIRAD-BIOS-UMR117, TA A-117/E, Campus international de Baillarguet, 34398 MONTPELLIER CEDEX 5, France Tel : 33 (0)4 67 59 37 24
5/7
E-TD-09 Rapport d’essai V03 du 20/06/2018
CIRAD - Biological Systems Department
AnimalS, health, Territories, Risks, Ecosystems (ASTRE) Unit
OIE, FAO and UE Reference Laboratory for Peste des Petits
Ruminants
RESULTS OF ANALYSIS
ASSAY REPORT Quality Control of the homologous PPR Nigeria 75-1 vaccine
RE « 15-025 »
CONCLUSION
CIRAD PPR vaccine batch 130314 is free from Mycoplasma, viral, bacterial and fungal
contamination.
BVDV3 genome detected by NGS analysis is only RNA contamination (no infectious viral
particles), probably an outcome from irradiated foetal calf serum used in the cell culture for
vaccine production. This strengthens the importance to set up a continuous specific control to
confirm absence of pestiviruses in the vaccine production process: such a permanent control
has been in place at CIRAD since more than 15 years.
Retrovirus endogenous of Vero cells, identified also by NGS technology should be present in
all vaccines produced on these cells.
About the Papillomavirus, the rarity of specific reads in the sample (one out of 63,556,517
millions reads) is not representative of a vaccine contamination, but probably occurred during
RNA and NGS sample preparation.
This report only concerns the objects submitted to analysis. This document belongs to CIRAD and shall neither be read
nor duplicated without permission.
CIRAD-BIOS-UMR117, TA A-117/E, Campus international de Baillarguet, 34398 MONTPELLIER CEDEX 5, France Tel : 33 (0)4 67 59 37 24
6/7
E-TD-09 Rapport d’essai V03 du 20/06/2018
CIRAD - Biological Systems Department
AnimalS, health, Territories, Risks, Ecosystems (ASTRE) Unit
OIE, FAO and UE Reference Laboratory for Peste des Petits
Ruminants
RESULTS OF ANALYSIS
ASSAY REPORT Quality Control of the homologous PPR Nigeria 75-1 vaccine
RE « 15-025 »
References
Cabannes E, Hébert C, Eloit M. Whole genome: next-generation sequencing as a virus safety test
for biotechnological products. PDA J Pharm Sci Technol. 2014, 68(6): 631-8. doi:
10.5731/pdajpst.2014.01015.
Cheval, J.; Sauvage, V.; Frangeul, L.; Dacheux, L.; Guigon, G.; Dumey, N.; Pariente, K.;
Rousseaux, C.; Dorange, F.; Berthet, N.; Brisse, S.; Moszer, I.; Bourhy, H.; Manuguerra, C. J.;
Lecuit, M.; Burguiere, A.; Caro, V.; Eloit, M. Evaluation of high-throughput sequencing for
identifying known and unknown viruses in biological samples. J. Clin. Microbiol. 2011, 49 (9),
3268 –3275.
Diallo, A, Taylor, W.P., Lefèvre, P.C. et Provost, A. Atténuation d’une souche de virus de la peste
des petits ruminants : candidat pour un vaccin homologue vivant. Rev. Elev. Méd. Vét. Pays trop.
1989. 42: 311-319.
Taylor W. P. and Abegunde A. Research in Veterinary Science, 1979, 26, 94-96 12.
Toussaint J.F., Sailleau C., Breard E., Zientara A. and De Clercq K. 2007. Bluetongue virus
detection by two real-time RT-qPCRs targeting two different genomic segments. Journal of
Virological Methods 140 (2007) 115–123
van Kuppeveld FJ, Johansson KE, Galama JM, Kissing J, Bölske G, van der Logt JT, Melchers WJ.
Detection of mycoplasma contamination in cell cultures by a mycoplasma group-specific PCR. Appl
Environ Microbiol. 1994 Jan;60(1):149-52.
This report only concerns the objects submitted to analysis. This document belongs to CIRAD and shall neither be read
nor duplicated without permission.
CIRAD-BIOS-UMR117, TA A-117/E, Campus international de Baillarguet, 34398 MONTPELLIER CEDEX 5, France Tel : 33 (0)4 67 59 37 24
7/7
E-TD-09 Rapport d’essai V03 du 20/06/2018
UMR 117 Animals, health, Territories, Risks, Ecosystems
OIE, FAO, EU Reference Laboratory for Peste des Petits Ruminants
Montpellier, 09/06/2021
SANITARY CERTIFICATE
contains:
- Two flasks of Vero cells (African green Monkey Kidney) in MEM (volume of each flask:
25cm3)
certified to be free of Mycoplasma, pestiviruses, Bluetongue virus, FMD virus, Circovirus, and
any bacterial or fungal contaminants.
Yours Sincerely,
CIRAD-BIOS-UMR117
TA A-117/E
Campus
international
de Baillarguet
34398 MONTPELLIER
Geneviève Libeau Arnaud Bataille
CEDEX 5, France
Co-heads of the OIE, FAO, EU Reference Laboratory for Peste des Petits Ruminants
Téléphone :
33 (0)4 67 59 37 24
Télécopie :
.
33 (0)4 67 59 37 98
Hester PPVR vaccine sequences bioinformatics analysis, by Jean Nepomuscene
Hakizimana, 06 February 2022
The fastq_pass file is used in the analysis. The fastq_pass contains data for 12 barcodes
(barcodes 01 to 12). After visualization of the content of each barcode file, I decided to continue
working with the barcode02 because it is the one the many sequencing reads as compared to
others.
1. Data concatenation
The “Cat” command was used to concatenate all the reads belonging to barcode02 as follow:
#cat *.fastq >mergedbarcode02.fastq
“gzip” was used to compress the concatenated file to be able to upload it in Kaiju for
metagenomics classification.
#gzip mergedbarcode02.fastq
The indexed BAM file was viewed in Integrative Genomics Viewer (IGV) version 2.8.9, the
results are shown below:
Figure 5: Distribution of the sequencing reads mapped to the PPRV vaccine strain
“Nigeria75/1” (accession number: KY628761.1) reference genome. A) General overview, B)
Zoom at the GC rich region.
Comments
Animal Origin
Not manufactured using animal origin material. Ingredients used to manufacture this
product are of non-animal origin, including any upstream materials (i.e., enzymes, etc.)
and their ancillary materials. Cleaning procedures mitigate risk for cross contamination
from other products / processes.
Non-Animal Origin
Not applicable as this product does not contain raw material of animal origin.
Bovine-Dairy
RE: Statement Response to The Committee For Proprietary Medicinal Products’ (CPMP) Note For
Guidance On Minimising The Risk Of Transmitting Animal Spongiform Encephalopathy Agents
Via Human And Veterinary Medicinal Products (EMEA/410/01 Rev.3).
The following statement is a response to the document listed above and is provided in support of
users of Kerry Brand Products, which use bovine milk-derived raw materials in their
manufacture.
Specific to these bovine milk-derived products is Section 6.6 Milk And Milk Derivatives of the
Note For Guidance On Minimising The Risk Of Transmitting Animal Spongiform Encephalopathy
Agents Via Human And Veterinary Medicinal Products (EMEA/410/01Rev.3) adopted by the
Committee for Proprietary Medicinal Products (CPMP) and by the Committee for Veterinary
Medicinal Products (CVMP).
Please note that there are two conditions required for milk derivatives to be in compliance with
this note for guidance:
1. 'The milk is sourced from healthy animals in the same conditions as milk collected for human
consumption' and
2.'No other ruminant materials, with the exception of calf rennet, are used in the preparation of
such derivatives (e.g. pancreatic enzyme digests of casein).'
This product contains only the bovine/ruminant material sources listed on the Certificate of
Animal Origin and does not use calf rennet. Any other animal sources used in the manufacture
of this product are also listed on the Certificate of Animal Origin and do not qualify as bovine/
ruminant origin. This product meets both requirements listed above, and therefore, does not
require a Certificate of Suitability.
Bovine-Non Dairy
Re: It is certified to the best of our knowledge that the above-named product does not contain
and is not derived from:
(a) as regards to bovine animals:
i. the skull excluding the mandible and including the brain and eyes, and the spinal cord of
animals aged over 12 months;
ii. the vertebral column excluding the vertebrae of the tail, the spinous and the transverse
processes of the cervical, thoracic and lumbar vertebrae and the median sacral crest and wings
of the sacrum, but including the dorsal root ganglia of animals aged over 30 months; and
iii. the tonsils, the intestines form the duodenum to the rectum and the mesentery of animals of
all ages.
(b) as regards ovine and caprine animals:
i. the skull including the brain and eyes, the tonsils, and the spinal cord of animals aged over 12
months or which have a permanent incisor erupted through the gum, and
ii. the spleen and ileum of animals of all ages.
(c) or mechanically separated meat obtained from bones of bovine, ovine or caprine animals;
(d) the animals from which this animal by-product is derived, have not been slaughtered after
stunning by means of gas injected into the cranial cavity or killed by the same method or
slaughtered by laceration of the central nervous tissue by means of an elongated rod-shaped
instrument introduced into the cranial cavity.
Country of Manufacture
Non-GMO
This term is used to describe products that contain no ingredients, additives or processing
aids derived from commodities that have commercially grown GMO varieties in the supply
chain.
Non-GMO (validated)
This term is used to describe products that contain ingredients, additives or processing aids
derived from commodities that have commercially grown GMO varieties in the supply chain;
however, they do not contain GMOs because 1) raw material records are maintained for
“Identity Preserved”, and/or 2) raw materials are tested for “PCR Negative” by our suppliers.
GMO
This term is used to describe products that contain ingredients, additives or processing aids
derived from commodities that have commercially grown GMO varieties in the supply chain.
Bioengineered
Contains ingredients derived from BE sources, but does not contain detectable modified
genetic material
Melamine
IS an at risk component, as it does contain dairy derived ingredients. To mitigate risk, Kerry
has taken several steps to ensure the safety of the material. Kerry has controlled sourcing
programs in place. All suppliers are approved based on our Quality System standards,
ensuring product safety, regulatory compliance, and absence of Melamine. Melamine is not
used anywhere in the manufacturing facility. Products are shipped from our facilities in
sealed, tamper-evident packaging in order to prevent adulteration of this product during
distribution.
Residual Solvents
Nitrosamines
This product:
Does not contain Sodium Nitrite or other nitrosating agents
Does not contain primary, secondary or tertiary amines used as a raw material,
intermediate, reagent catalyst or processing aid
Does not contain an ammonium salt used as a raw material, intermediate, catalyst or
processing aid
Proposition 65
With regard to California’s Safe Drinking Water and Toxic Enforcement Act of 1986 (Proposition
65), we have not carried out any specific analysis to confirm the absence of Proposition 65
chemicals. However, we hereby certify that, to the best of our knowledge, the above mentioned
product(s):
Does not contain any intentionally added chemicals on the Proposition 65 list.
Latex
The information given and the recommendations made herein are based on our research and are believed to be accurate, but no guarantee of their accuracy is made. Data
presented herein are typical values; slight variations may occur. We guarantee that products shipped by us to you, are not, as of the date of shipment or delivery, adulterated or
misbranded within the meaning of the Federal Food, Drug and Cosmetic Act. Except as expressly set forth in the preceding sentence, the PRODUCTS DISCUSSED HEREIN ARE
SOLD WITHOUT ANY WARRANTY AS TO MERCHANTABILITY OR FITNESS FOR A PARTICULAR PURPOSE OR ANY OTHER WARRANTY, EXPRESSED OR IMPLIED. Nothing contained
herein shall be construed to imply the nonexistence of any relevant patents or to constitute a permission, inducement or recommendation to practice any invention covered by
any patent, without authority from the owner of the patent.