Université de Ghardaïa

Faculté des Sciences de la Nature et de la Vie et Sciences de la Terre

Département de Biologie
4ème Journée des Masters 2023

Molecular and chemotaxonomic comparative study (based on Jaccard

M6 and Kulczynski coefficients) of the genus Saccharomonospora

Presented by: EL ALOUANI Daoued/ KOUZRITE Mustafa Supervised by : Prof. BOURAS Noureddine

ABSTRACT RESULTS
A comparative study was conducted on 15 validated species/subspecies
belonging to the genus of Saccharomonospora, and the evolutionary distances
in relation to S. piscinae were deduced. Jaccard and Kulczynski similarity
indexes were used to construct the numerical chemotaxonomic dendogam Via
PAST tool, while MEGA11 tool was used to obtain a 16S rRNA phylogenic
dendogram. Surprisingly, major differences were observed between the two
statistical coefficients, with a complete accordance between Jaccard coefficient
and 16S rRNA Neighbor Joining method in MEGA11. Further comparison Fig 2. Saccharomonospora Sp. phylogenetic tree based on Jaccard index
taking into consideration the whole genome, and biosynthetic clusters, among
others, rather than the partial RNA 16S gene, is recommended. Even the
molecular tool is the systematics’ gold standard, there will be always a necessity
to a multifaceted approaches, and the chemotaxonomy is still a useful tool and
can go hand in hand with the molecular approaches.

INTRODUCTION
Fig 3. Saccharomonospora Sp. phylogenetic tree based on Kulczynski index

The genus Saccharomonospora was proposed by

Nonomura and Ohara in 1971 for monosporic
actinomycetes that contained meso-diaminopimelic acid,
arabinose, and galactose in the peptidoglycan [1].
Subsequently, additional chemical markers were found
to be characteristic [2].
Up to date, 19 species are designated to this genus, and
only 15 are validated . In the context of filling the
necessity to determine the taxonomic structure of this
Fig 4. Saccharomonospora Sp. phylogenetic tree based on 16S rRNA
genus in relationships to the existing taxa and the Fig 1. S. halophila
prospective new species [3], this study tries to assess the https://www.resear
viability of the chemotaxonomic methods based on chgate.net/figure/S

Jaccard and Kulczynski similarity coefficients, and to

EM DISCUSSIONS
compare it with the molecular 16S rRNA .
The order of similarity is the same only for the first 4 species
(PI>OC>XI>HA), and differs significantly for the rest, according to the Jaccard
and Kulczynski’s coefficients; probably due to lack of information about many
MATERIALS & METHODS cell wall components. Jaccard coefficient and 16S rRNA Neighbor Joining
method in Mega11, (not in MEGA4) both give a remarkably identical between.
It is worthy to note that the similarity order for the molecular methods is
1- Retrieve list of Validated species from LPSN strikingly different between MEGA11 and EZbioCloud database.
MEGA 11 and Jaccard similarity index, hint to a possible revision of the
2- Construct chemotaxonomic Martix systematic position of IR, IP, HA.
3- Compute Jaccard and Kulczynski coeficientes
CONCLUSION
This comparative study on the genus of Saccharomonospora, shows that the
molecular taxonomic methods are the gold standard of systematic and
classification, due to the rapidity, efficiency, and ease of use; and the rapid
advances in the field of bioinformatics and technology make it even more
pertinent, and made the chemotaxonomy fell out of favor. even that, the
chemotaxonomy still a useful tool at least to delineate groups of related species
4- Generate chemotaxonomic phylogenic trees from molecular perspective.
using PAST
RÉFÉRENCES BIBLIOGRAPHIQUES
5- Retrieve 16S rRNA Sequences from 1- Ruan, J. S., Lang, Y., Shi, Y., Qu, L., & Yu, X. (1994). Chemical and molecular classification
of Saccharomonospora strains. International journal of systematic bacteriology, 44(4), 704–707.
NCBI 2- Kroppenstedt R. M. 1985; Fatty acid and menaquinone analysis of actinomycetes and related
organisms,. 173–189 Goodfellow M., Minnikin D. E. Chemical methods in bacterial
systematics Academic Press Ltd; London
3- KIM, S.-B., YOON, J.-H., KIM, H., LEE, S. T., PARK, Y.-H., & GOODFELLOW, M.
6- Construct phylogenetic tree based on (1995). A Phylogenetic Analysis of the Genus Saccharomonospora Conducted with 16S rRNA
16S rRNA, using MEGA Gene Sequences. International Journal of Systematic and Evolutionary Microbiology, 45(2),
351-356. doi:https://doi.org/10.1099/00207713-45-2-351