| Literature DB >> 35069618 |
Gizachew Woldesenbet Nuraga1,2, Tileye Feyissa3, Kassahun Tesfaye3,4, Manosh Kumar Biswas1, Trude Schwarzacher1, James S Borrell5, Paul Wilkin5, Sebsebe Demissew6, Zerihun Tadele7, J S Pat Heslop-Harrison1.
Abstract
Enset (Ensete ventricosum) is a multipurpose crop extensively cultivated in southern and southwestern Ethiopia for human food, animal feed, and fiber. It has immense contributions to the food security and rural livelihoods of 20 million people. Several distinct enset landraces are cultivated for their uses in traditional medicine. These landraces are vulnerable to various human-related activities and environmental constraints. The genetic diversity among the landraces is not verified to plan conservation strategy. Moreover, it is currently unknown whether medicinal landraces are genetically differentiated from other landraces. Here, we characterize the genetic diversity of medicinal enset landraces to support effective conservation and utilization of their diversity. We evaluated the genetic diversity of 51 enset landraces, of which 38 have reported medicinal value. A total of 38 alleles across the 15 simple sequence repeat (SSR) loci and a moderate level of genetic diversity (He = 0.47) were detected. Analysis of molecular variation (AMOVA) revealed that only 2.4% of the total genetic variation was contributed by variation among the medicinal and non-medicinal groups of landraces, with an FST of 0.024. A neighbor-joining tree showed four separate clusters with no correlation to the use-values of the landraces. Except for two, all "medicinal" landraces with distinct vernacular names were found to be genetically different, showing that vernacular names are a good indicator of genetic distinctiveness in these specific groups of landraces. The discriminant analysis of the principal components also confirmed the absence of distinct clustering between the two groups. We found that enset landraces were clustered irrespective of their use-value, showing no evidence for genetic differentiation between the enset grown for 'medicinal' uses and non-medicinal landraces. This suggests that enset medicinal properties may be restricted to a more limited number of genotypes, might have resulted from the interaction of genotype with the environment or management practice, or partly misreported. The study provides baseline information that promotes further investigations in exploiting the medicinal value of these specific landraces.Entities:
Keywords: Ensete ventricosum; SSR markers; conservation; genetic diversity; landrace; traditional medicine
Year: 2022 PMID: 35069618 PMCID: PMC8770334 DOI: 10.3389/fpls.2021.756182
Source DB: PubMed Journal: Front Plant Sci ISSN: 1664-462X Impact factor: 5.753
FIGURE 1Map of Ethiopia showing its Federal Regions (left) and enset sample collection sites that represent the nine studied districts found in, within four zones (Dawuro, Kembata-Tembaro, Hadya, and Gurage), and one special district (Yem) of the Southern, Nations, Nationalities, and Peoples (SNNP) Region. The map was constructed using geographic coordinates and elevation data collected from each sites using global positioning system (GPS). PA, Peasant association (the lowest tier of civil administration unit); SNNP, Southern, Nations, nationalities and Peoples.
Description and source of the 15 simple sequence repeat (SSR) primers used in genetic diversity of enset landraces.
| Marker name | Forward primer sequence (5′–3′) | Reverse primer sequence (5′–3′) | Repeat motif | Size (bp) | References | T |
| Evg-01 | AGTCATTGTGCGCAGTTTCC | CGGAGGACTCCATGTGGATGAG | (CTT)8 | 100–120 |
| 60 |
| Evg-02 | GGAGAAGCATTTGAAGGTTCTTG | TTCGCATTTATCCCTGGCAC | (AG)12 | 118–153 |
| 62 |
| Evg-04 | GCCATCGAGAGCTAAGGGG | GGCAAGGCCGTAAGATCAAC | (AG)21 | 113–147 |
| 60 |
| Evg-05 | AGTTGTCACCAATTGCACCG | CCATCCTCCACACATGCC | (GA)22 | 103–141 |
| 62 |
| Evg-06 | CCGAAGTGCAACACCAGAG | TCGCTTTGCTCAACATCACC | (GAA)9 | 202–211 |
| 62 |
| Evg-08 | CCATCGACGCCTTAACAGAG | TGAACCTCGGGAGTGACATAAG | (GA)21 | 164–190 |
| 60 |
| Evg-09 | GCCTTTCGTATGCTTGGTGG | ACGTTGTTGCCGACATTCTG | (GA)13 | 141–175 |
| 60 |
| Evg-10 | CAGCCTGTGCAGCTAATCAC | CAGCAGTTGCAGATCGTGTC | (AG)21 | 191–210 |
| 60 |
| Evg-11 | GGCCTAGTGACATGATGGTG | TGATGCTAGATTCAAAGTCAAGG | (AC)13 | 135–160 |
| 62 |
| Evg-13 | TTGAAAGCATTGCATGTGGC | TCACCACTGTAGACCTCAGC | (CA)14 | 189–229 |
| 62 |
| Evg-14 | AACCAATCTGCCTGCATGTG | GCCAGTGATTGTTGAGGTGG | (TGA)8 | 153–159 |
| 62 |
| En | ATCTGCATGCACCCTAGCTT | AAACCCTAACGTCCCTCCTC | (GT)10 | 189 |
| 62 |
| En | ATCAAGGTCATGTGCTGTGC | ATCAAGGTCATGTGCTGTGC | (CT)11 | 116 |
| 62 |
| EnM00011571 | GATCTGATCCACCTCCTCGT | CGACAAGGATCAAAATGGCT | (AGG)5 | 277 |
| 64 |
| En | TTCTCTTGCTGCACACACC | TCATGATCCCTGTCCTCCTC | (GA)9 | 313 |
| 64 |
T
Levels of diversity indices of the SSR loci.
| SSR Loci | Na | Ne | I | Ho | He | uHe | PIC | F |
| Evg1 | 3.00 | 2.27 | 0.89 | 0.39 | 0.54 | 0.56 | 0.48 | 0.30 |
| Evg2 | 3.00 | 2.43 | 0.97 | 0.42 | 0.59 | 0.60 | 0.52 | 0.29 |
| Evg4 | 3.00 | 2.29 | 0.92 | 0.63 | 0.56 | 0.57 | 0.49 | –0.12 |
| Evg5 | 2.00 | 1.82 | 0.64 | 0.54 | 0.45 | 0.46 | 0.36 | –0.20 |
| Evg6 | 2.00 | 1.41 | 0.43 | 0.00 | 0.27 | 0.28 | 0.26 | 1.00 |
| Evg8 | 3.00 | 2.21 | 0.89 | 0.51 | 0.54 | 0.56 | 0.50 | 0.07 |
| Evg9 | 3.00 | 2.27 | 0.93 | 0.44 | 0.55 | 0.56 | 0.49 | 0.20 |
| Evg10 | 2.00 | 1.82 | 0.63 | 0.00 | 0.44 | 0.45 | 0.36 | 1.00 |
| Evg11 | 3.00 | 1.87 | 0.74 | 0.41 | 0.46 | 0.47 | 0.43 | 0.08 |
| Evg13 | 3.00 | 2.16 | 0.85 | 0.56 | 0.54 | 0.55 | 0.44 | –0.06 |
| Evg14 | 2.00 | 1.92 | 0.67 | 0.64 | 0.48 | 0.49 | 0.37 | –0.34 |
| EnO28 | 3.00 | 2.70 | 1.04 | 0.58 | 0.63 | 0.64 | 0.59 | 0.08 |
| EnB85 | 2.00 | 1.23 | 0.31 | 0.21 | 0.18 | 0.18 | 0.16 | –0.12 |
| EnM71 | 2.00 | 1.91 | 0.67 | 0.51 | 0.48 | 0.49 | 0.36 | –0.06 |
| EnM65 | 2.00 | 1.60 | 0.56 | 0.41 | 0.38 | 0.39 | 0.31 | –0.09 |
| Mean | 2.53 | 1.99 | 0.74 | 0.42 | 0.47 | 0.48 | 0.41 | 0.14 |
N
Analysis of molecular variance and fixation index for landraces used in traditional medicine and those having other use values based on data from 15 loci.
| Source of variation | Degree of freedom | Sum of square | Variance components | Percent variation | Fixation index | |
| Among groups | 1 | 8.28 | 0.09 | 2.4 | FST: 0.024 | 0.008 |
| Within groups | 182 | 669.83 | 3.68 | 97.6 | ||
| Total | 183 | 678.11 | 3.77 | 100 |
FIGURE 2The unrooted neighbor-joining tree generated based on simple matching dissimilarity coefficients over 1,000 replicates, showing the genetic relationship among 51 Ensete ventricosum landraces (duplicated on average two times) using 15 SSR markers. Landraces are color-coded according to previously identified diseases types or disorders treated by the landraces traditionally, as designated by: BF for bone fracture; DP, discharge of placenta; BI, back injury; SD, skin itching and diarrhea; NM, non-medicinal; ET, expulsion of thorn and drainage of abscess from tissue; LD, liver disease; OD, other diseases. Numbers at the nodes are bootstrap values only ≥ 60%.
FIGURE 3Population structure and detection of admixture based on 15 polymorphic simple sequence repeat (SSR) markers indicating estimated group structure with individual group membership values (1–92 following arrangement of landraces in Supplementary Table 1) (A) and Discriminant analyses of principal components (DAPC) scatter plot for 92 enset landraces (B). The axes represent the first two linear discriminants, each circle represents a cluster, and each dot represents an individual. Numbers represent the different subpopulations identified by DAPC analysis.