1
|
Aviles-Noriega A, Serrato-Diaz LM, Giraldo-Zapata MC, Cuevas HE, Rivera-Vargas LI. The Sigatoka Disease Complex Caused by Pseudocercospora spp. and Other Fungal Pathogens Associated with Musa spp. in Puerto Rico. Plant Dis 2024:PDIS03230433RE. [PMID: 37966473 DOI: 10.1094/pdis-03-23-0433-re] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2023]
Abstract
Bananas (Musa spp.) are among the world's most economically important staple food crops. The most important fungal leaf diseases of Musa spp. worldwide are caused by the Sigatoka disease complex, which comprises black Sigatoka (Pseudocercospora fijiensis), yellow Sigatoka (P. musae), and Eumusae leaf spot (P. eumusae). Considering the rapid spreading rate of black Sigatoka in Puerto Rico since its first observation in 2004, a disease survey was conducted from 2018 to 2020 to evaluate the Sigatoka disease complex on the island. Sixty-one leaf samples showing Sigatoka-like symptoms were collected throughout the island for diagnosis by molecular approaches and fungal isolation. Molecular analysis using species-specific primers for P. fijiensis, P. musae, and P. eumusae detected the presence of P. fijiensis in 50 leaf samples. Thirty-eight fungal isolates were collected and identified by morphology and genomic sequencing from various nuclear genes. The analysis identified 24 isolates as P. fijiensis, while the rest of the isolates belonged to the genus Cladosporium spp. and Cladosporium-like spp. (n = 5), Neocordana musae (n = 2), Zasmidium spp. (n = 6), and Z. musigenum (n = 1). The high frequency of P. fijiensis found in leaf samples and collected isolates suggests that black Sigatoka has displaced the yellow Sigatoka (P. musae) in Puerto Rico. Accurate identification of fungal species causing foliar diseases in Musa spp. will allow the establishment of quarantine regulations and specific management approaches in Puerto Rico.
Collapse
Affiliation(s)
- Ashley Aviles-Noriega
- Department of Agro-Environmental Sciences, College of Agricultural Sciences, University of Puerto Rico-Mayagüez Campus, Mayagüez, PR 00681
| | - Luz M Serrato-Diaz
- United States Department of Agriculture-Agricultural Research Service, Tropical Agriculture Research Station, Mayagüez, PR 00680
| | - Martha C Giraldo-Zapata
- Department of Agro-Environmental Sciences, College of Agricultural Sciences, University of Puerto Rico-Mayagüez Campus, Mayagüez, PR 00681
| | - Hugo E Cuevas
- United States Department of Agriculture-Agricultural Research Service, Tropical Agriculture Research Station, Mayagüez, PR 00680
| | - Lydia I Rivera-Vargas
- Department of Agro-Environmental Sciences, College of Agricultural Sciences, University of Puerto Rico-Mayagüez Campus, Mayagüez, PR 00681
| |
Collapse
|
2
|
Bragard C, Baptista P, Chatzivassiliou E, Di Serio F, Gonthier P, Jaques Miret JA, Justesen AF, MacLeod A, Magnusson CS, Milonas P, Navas‐Cortes JA, Parnell S, Potting R, Stefani E, Thulke H, Van der Werf W, Vicent Civera A, Yuen J, Zappalà L, Golic D, Gobbi A, Maiorano A, Pautasso M, Reignault PL. Pest categorisation of Pyrrhoderma noxium. EFSA J 2024; 22:e8667. [PMID: 38505477 PMCID: PMC10949325 DOI: 10.2903/j.efsa.2024.8667] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/21/2024] Open
Abstract
Following the commodity risk assessment of bonsai plants (Pinus parviflora grafted on Pinus thunbergii) from China performed by EFSA, the EFSA Plant Health Panel performed a pest categorisation of Pyrrhoderma noxium, a clearly defined plant pathogenic basidiomycete fungus of the order Hymenochaetales and the family Hymenochaetaceae. The pathogen is considered as opportunistic and has been reported on a wide range of hosts, mainly broad-leaved and coniferous woody plants, causing root rots. In addition, the fungus was reported to live saprophytically on woody substrates and was isolated as an endophyte from a few plant species. This pest categorisation focuses on the hosts that are relevant for the EU (e.g. Citrus, Ficus, Pinus, Prunus, Pyrus, Quercus and Vitis vinifera). Pyrrhoderma noxium is present in Africa, Central and South America, Asia and Oceania. It has not been reported in the EU. Pyrrhoderma noxium is not included in Commission Implementing Regulation (EU) 2019/2072. Plants for planting (excluding seeds), bark and wood of host plants as well as soil and other growing media associated with plant debris are the main pathways for the entry of the pathogen into the EU. Host availability and climate suitability factors occurring in parts of the EU are favourable for the establishment and spread of the pathogen. The introduction and spread of the pathogen into the EU are expected to have an economic and environmental impact in parts of the territory where hosts are present. Phytosanitary measures are available to prevent the introduction and spread of the pathogen into the EU. Pyrrhoderma noxium satisfies all the criteria that are within the remit of EFSA to assess for this species to be regarded as potential Union quarantine pest.
Collapse
|
3
|
Rao X, Chen H, Lu Y, Liu R, Li H. Distribution and Location of BEVs in Different Genotypes of Bananas Reveal the Coevolution of BSVs and Bananas. Int J Mol Sci 2023; 24:17064. [PMID: 38069393 PMCID: PMC10707546 DOI: 10.3390/ijms242317064] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2023] [Revised: 11/29/2023] [Accepted: 11/29/2023] [Indexed: 12/18/2023] Open
Abstract
Members of the family Caulimoviridae contain abundant endogenous pararetroviral sequences (EPRVs) integrated into the host genome. Banana streak virus (BSV), a member of the genus Badnavirus in this family, has two distinct badnaviral integrated sequences, endogenous BSV (eBSV) and banana endogenous badnavirus sequences (BEVs). BEVs are distributed widely across the genomes of different genotypes of bananas. To clarify the distribution and location of BEVs in different genotypes of bananas and their coevolutionary relationship with bananas and BSVs, BEVs and BSVs were identified in 102 collected banana samples, and a total of 327 BEVs were obtained and categorized into 26 BEVs species with different detection rates. However, the majority of BEVs were found in Clade II, and a few were clustered in Clade I. Additionally, BEVs and BSVs shared five common conserved motifs. However, BEVs had two unique amino acids, methionine and lysine, which differed from BSVs. BEVs were distributed unequally on most of chromosomes and formed hotspots. Interestingly, a colinear relationship of BEVs was found between AA and BB, as well as AA and SS genotypes of bananas. Notably, the chromosome integration time of different BEVs varied. Based on our findings, we propose that the coevolution of bananas and BSVs is driven by BSV Driving Force (BDF), a complex interaction between BSVs, eBSVs, and BEVs. This study provides the first clarification of the relationship between BEVs and the coevolution of BSVs and bananas in China.
Collapse
Affiliation(s)
| | | | | | | | - Huaping Li
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Plant Protection, South China Agricultural University, Guangzhou 510642, China; (X.R.); (H.C.); (Y.L.); (R.L.)
| |
Collapse
|
4
|
Guyot V, Ly NS, Trieu TD, Insisiengmay O, Zhang T, Iskra-Caruana ML, Pooggin MM. Evidence for Dicot Plants as Alternative Hosts of Banana Bunchy Top Virus and Its Alphasatellites in South-East Asia. Pathogens 2023; 12:1289. [PMID: 38003755 PMCID: PMC10675457 DOI: 10.3390/pathogens12111289] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2022] [Revised: 10/18/2023] [Accepted: 10/19/2023] [Indexed: 11/26/2023] Open
Abstract
Banana bunchy top virus is a multicomponent circular ssDNA virus (family Nanoviridae) that causes one of the most devastating diseases of cultivated bananas and plantains (family Musaceae). It is transmitted by the aphids Pentalonia nigronervosa and P. caladii among host plants of Musaceae and some other families of monocots. Our Illumina sequencing reconstruction of virome components of BBTV-infected banana plants and their neighbor non-banana plants sampled in Vietnam and Laos revealed the monocot Commelina sp. (Commelinaceae) and the dicots Bidens pilosa and Chromolaena odorata (both Asteraceae) as hosts of BBTV and circular ssDNA alphasatellites (family Alphasatellitidae). Counting the proportions and relative abundances of Illumina reads representing BBTV genome components and alphasatellites suggested that Chromolaena and Commelina are poor hosts for BBTV and one to three alphasatellite species, whereas Bidens is a permissive host for BBTV and four alphasatellite species representing two genera of Alphasatellitidae. Our findings provide evidence for the dicot plants of family Asteraceae as alternative hosts of BBTV and its alphasatellites, which warrants further investigation of these and other dicots as a potential refuge and source of BBTV and multiple alphasatellites that become associated with this virus and likely affect its replication, transmission, and host range.
Collapse
Affiliation(s)
- Valentin Guyot
- PHIM Plant Health Institute, University of Montpellier, INRAE, CIRAD, IRD, Institute Agro, 34398 Montpellier, France
| | - Ngoc-Sam Ly
- Institute of Tropical Biology, Vietnam Academy of Science and Technology, Ho Chi Minh City 721400, Vietnam
| | - Tien-Dung Trieu
- Northern Mountainous Agriculture and Forestry Science Institute, Phu Tho City 290000, Vietnam
| | - Oudomphone Insisiengmay
- Life Science Research Centre, Science and Innovation Research Institute, Ministry of Education and Sports, Dontiew Road, Xaythany District, Vientiane 99241, Laos
| | - Ting Zhang
- Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China
| | | | | | - Mikhail M. Pooggin
- PHIM Plant Health Institute, University of Montpellier, INRAE, CIRAD, IRD, Institute Agro, 34398 Montpellier, France
| |
Collapse
|
5
|
Natarajan RB, Pathania P, Singh H, Agrawal A, Subramani R. A Flow Cytometry-Based Assessment of the Genomic Size and Ploidy Level of Wild Musa Species in India. Plants (Basel) 2023; 12:3605. [PMID: 37896068 PMCID: PMC10609997 DOI: 10.3390/plants12203605] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/04/2023] [Revised: 10/12/2023] [Accepted: 10/15/2023] [Indexed: 10/29/2023]
Abstract
The genome size variation is an important attribute in evolutionary and species characterization. Musa L. is regarded as one of the taxonomically complicated genera within the order Zingiberales, with more than 75 species from wild seeded to seedless cultivars that may be diploid, triploid or tetraploid. The knowledge of total nuclear DNA content in terms of genome size and ploidy level in wild species of Musa is absolutely important in evolutionary and genomic studies. METHODS In this paper, chromosome spreading was performed via protoplast isolation and a fast air-dry dropping method and flow cytometry were used with Raphanus sativus L. (Brassicaceae) as a standard for ploidy and genome size estimation. RESULTS The results showed that genome size (2C) varied amongst Musa species, based on the ratio of G1 peak positions. The lowest genome size (2C) was found in M. balbisiana var. andamanica (1.051 ± 0.060 pg) and the highest genome size (2C) was recorded for Musa ABB.cv. Meitei-hei (1.812 ± 0.108 pg) for the section Eumusa. Among the species belonging to the section Rhodochlamys, M. rosae had the lowest 2C content of 1.194 ± 0.033 pg whereas the highest nuclear DNA content (2C) was observed in M. velutina (1.488 ± 0.203 pg). Cytogenetic analysis revealed that the chromosome number of 14 wild Musa species was 2n = 22, while 1 species-Ensete glaucum-showed a chromosome number of 2n = 18 (diploid), and for 3 species, the chromosome number was 2n = 33 (triploids). An association study based on the Pearson correlation coefficient showed 2C nuclear DNA content was significant and positively correlated with ploidy level (R = 0.9) and chromosome number (R = 0.84). CONCLUSIONS The present study provides reliable information on the genome size and ploidy level of wild Musa species from the Indian region through flow cytometric analysis, which could be further utilized in taxonomic and crop improvement programs. For the first time, the nuclear DNA content of eight wild diploid and three triploid Indian species were estimated and reported. Genome size could be an effective indicator in identification of species and evolutionary studies in Musa with varying ploidy levels and morphological similarities.
Collapse
Affiliation(s)
- Rithesh B Natarajan
- Division of Plant Genetic Resources, ICAR-Indian Agricultural Research Institute, Pusa Campus, New Delhi 110012, India
| | - Pooja Pathania
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi 110012, India
| | - Hardeep Singh
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi 110012, India
| | - Anuradha Agrawal
- Division of Plant Genetic Resources, ICAR-Indian Agricultural Research Institute, Pusa Campus, New Delhi 110012, India
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi 110012, India
- Indian Council of Agricultural Research, Pusa Campus, New Delhi 110012, India
| | - Rajkumar Subramani
- Division of Plant Genetic Resources, ICAR-Indian Agricultural Research Institute, Pusa Campus, New Delhi 110012, India
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi 110012, India
| |
Collapse
|
6
|
Tuárez-García DA, Galván-Gámez H, Erazo Solórzano CY, Edison Zambrano C, Rodríguez-Solana R, Pereira-Caro G, Sánchez-Parra M, Moreno-Rojas JM, Ordóñez-Díaz JL. Effects of Different Heating Treatments on the Antioxidant Activity and Phenolic Compounds of Ecuadorian Red Dacca Banana. Plants (Basel) 2023; 12:2780. [PMID: 37570934 PMCID: PMC10420799 DOI: 10.3390/plants12152780] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/30/2023] [Revised: 07/20/2023] [Accepted: 07/25/2023] [Indexed: 08/13/2023]
Abstract
The banana is a tropical fruit characterized by its composition of healthy and nutritional compounds. This fruit is part of traditional Ecuadorian gastronomy, being consumed in a wide variety of ways. In this context, unripe Red Dacca banana samples and those submitted to different traditional Ecuadorian heating treatments (boiling, roasting, and baking) were evaluated to profile their phenolic content by ultra-high-performance liquid chromatography coupled to high-resolution mass spectrometry (UHPLC-HRMS) and the antioxidant activity by ORAC, ABTS, and DPPH assays. A total of sixty-eight phenolic compounds were identified or tentatively identified in raw banana and treated samples, highlighting the content in flavonoids (flavan-3-ols with 88.33% and flavonols with 3.24%) followed by the hydroxybenzoic acid family (5.44%) in raw banana samples. The total phenolic compound content significantly decreased for all the elaborations evaluated, specifically from 442.12 mg/100 g DW in fresh bananas to 338.60 mg/100 g DW in boiled (23.41%), 243.63 mg/100 g DW in roasted (44.90%), and 109.85 mg/100 g DW in baked samples (75.15%). Flavan-3-ols and flavonols were the phenolic groups most affected by the heating treatments, while flavanones and hydroxybenzoic acids showed higher stability against the heating treatments, especially the boiled and roasted samples. In general, the decrease in phenolic compounds corresponded with a decline in antioxidant activity, evaluated by different methods, especially in baked samples. The results obtained from PCA studies confirmed that the impact of heating on the composition of some phenolic compounds was different depending on the technique used. In general, the heating processes applied to the banana samples induced phytochemical modifications. Even so, they remain an important source of bioactive compounds for consumers.
Collapse
Affiliation(s)
- Diego Armando Tuárez-García
- Faculty of Industry and Production Sciences, State Technical University of Quevedo, Av. Walter Andrade, km 1.5 Via Santo Domingo, Quevedo 120301, Ecuador; (D.A.T.-G.); (C.Y.E.S.)
| | - Hugo Galván-Gámez
- Department of Agrifood Industry and Food Quality, Andalusian Institute of Agricultural and Fisheries Research and Training (IFAPA), Alameda del Obispo, Avda Menéndez Pidal s/n, 14004 Córdoba, Spain; (H.G.-G.); (R.R.-S.); (G.P.-C.); (M.S.-P.)
| | - Cyntia Yadira Erazo Solórzano
- Faculty of Industry and Production Sciences, State Technical University of Quevedo, Av. Walter Andrade, km 1.5 Via Santo Domingo, Quevedo 120301, Ecuador; (D.A.T.-G.); (C.Y.E.S.)
| | - Carlos Edison Zambrano
- Faculty of Business Sciences, State Technical University of Quevedo, Av. Walter Andrade, km 1.5 Via Santo Domingo, C.P. 73, Quevedo 120301, Ecuador;
| | - Raquel Rodríguez-Solana
- Department of Agrifood Industry and Food Quality, Andalusian Institute of Agricultural and Fisheries Research and Training (IFAPA), Alameda del Obispo, Avda Menéndez Pidal s/n, 14004 Córdoba, Spain; (H.G.-G.); (R.R.-S.); (G.P.-C.); (M.S.-P.)
- MED—Mediterranean Institute for Agriculture, Environment and Development & CHANGE—Global Change and Sustainability Institute, Faculdade de Ciências e Tecnologia, Universidade do Algarve, Campus de Gambelas, 8005-139 Faro, Portugal
| | - Gema Pereira-Caro
- Department of Agrifood Industry and Food Quality, Andalusian Institute of Agricultural and Fisheries Research and Training (IFAPA), Alameda del Obispo, Avda Menéndez Pidal s/n, 14004 Córdoba, Spain; (H.G.-G.); (R.R.-S.); (G.P.-C.); (M.S.-P.)
- Foods for Health Group, Instituto Maimónides de Investigación Biomédica de Córdoba (IMIBIC), 14004 Córdoba, Spain
| | - Mónica Sánchez-Parra
- Department of Agrifood Industry and Food Quality, Andalusian Institute of Agricultural and Fisheries Research and Training (IFAPA), Alameda del Obispo, Avda Menéndez Pidal s/n, 14004 Córdoba, Spain; (H.G.-G.); (R.R.-S.); (G.P.-C.); (M.S.-P.)
| | - José M. Moreno-Rojas
- Department of Agrifood Industry and Food Quality, Andalusian Institute of Agricultural and Fisheries Research and Training (IFAPA), Alameda del Obispo, Avda Menéndez Pidal s/n, 14004 Córdoba, Spain; (H.G.-G.); (R.R.-S.); (G.P.-C.); (M.S.-P.)
- Foods for Health Group, Instituto Maimónides de Investigación Biomédica de Córdoba (IMIBIC), 14004 Córdoba, Spain
| | - José L. Ordóñez-Díaz
- Department of Agrifood Industry and Food Quality, Andalusian Institute of Agricultural and Fisheries Research and Training (IFAPA), Alameda del Obispo, Avda Menéndez Pidal s/n, 14004 Córdoba, Spain; (H.G.-G.); (R.R.-S.); (G.P.-C.); (M.S.-P.)
| |
Collapse
|
7
|
Aghdam SA, Lahowetz RM, Brown AMV. Divergent endophytic viromes and phage genome repertoires among banana ( Musa) species. Front Microbiol 2023; 14:1127606. [PMID: 37362937 PMCID: PMC10288200 DOI: 10.3389/fmicb.2023.1127606] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2022] [Accepted: 05/02/2023] [Indexed: 06/28/2023] Open
Abstract
Introduction Viruses generally cause disease, but some viruses may be beneficial as resident regulators of their hosts or host microbiomes. Plant-associated viruses can help plants survive by increasing stress tolerance or regulating endophytic communities. The goal of this study was to characterize endophytic virus communities in banana and plantain (Musa spp.) genotypes, including cultivated and wild species, to assess virome repertoires and detect novel viruses. Methods DNA viral communities were characterized by shotgun sequencing of an enriched endosphere extract from leaves and roots or corm of 7 distinct Musa genotypes (M. balbisiana, Thai Black, M. textilis, M. sikkimensis, Dwarf Cavendish, Williams Hybrid, and FHIA-25 Hybrid). Results Results showed abundant virus-like contigs up to 108,191 bp long with higher relative abundance in leaves than roots. Analyses predicted 733 phage species in 51 families, with little overlap in phage communities among plants. Phage diversity was higher in roots and in diploid wild hosts. Ackermanniviridae and Rhizobium phage were generally the most abundant taxa. A Rhizobium RR1-like phage related to a phage of an endophytic tumor-causing rhizobium was found, bearing a holin gene and a partial Shiga-like toxin gene, raising interest in its potential to regulate endophytic Rhizobiaceae. Klebsiella phages were of interest for possible protection against Fusarium wilt, and other phages were predicted with potential to regulate Erwinia, Pectobacterium, and Ralstonia-associated diseases. Although abundant phage-containing contigs were functionally annotated, revealing 1,038 predicted viral protein domains, gene repertoires showed high divergence from database sequences, suggesting novel phages in these banana cultivars. Plant DNA viruses included 56 species of Badnavirus and 26 additional non-Musa plant viruses with distributions that suggested a mixture of resident and transient plant DNA viruses in these samples. Discussion Together, the disparate viral communities in these plants from a shared environment suggest hosts drive the composition of these virus communities. This study forms a first step in understanding the endophytic virome in this globally important food crop, which is currently threatened by fungal, bacterial, and viral diseases.
Collapse
|
8
|
Vantyghem M, Beelen E, Hood-Nowotny R, Merckx R, Dercon G. 13C labeling unravels carbon dynamics in banana between mother plant, sucker and corm under drought stress. Front Plant Sci 2023; 14:1141682. [PMID: 37360734 PMCID: PMC10286810 DOI: 10.3389/fpls.2023.1141682] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/10/2023] [Accepted: 04/04/2023] [Indexed: 06/28/2023]
Abstract
Banana is a perennial crop and typically consists of a mother plant and one or more suckers that will serve as the next generation. Suckers are photosynthetically active, but also receive photo-assimilates from the mother plant. While drought stress is the most important abiotic constraint to banana cultivation, its effect on suckers or banana mats as a whole remains unknown. To investigate whether parental support to suckers is altered under drought stress and to determine the photosynthetic cost to the parental plant, we conducted a 13C labeling experiment. We labeled banana mother plants with 13CO2 and traced the label up to two weeks after labeling. This was done under optimal and drought-stressed conditions in plants with and without suckers. We retrieved label in the phloem sap of the corm and sucker as soon as 24 hours after labeling. Overall, 3.1 ± 0.7% of label assimilated by the mother plant ended up in the sucker. Allocation to the sucker seemed to be reduced under drought stress. The absence of a sucker did not enhance the growth of the mother plant; instead, plants without suckers had higher respiratory losses. Furthermore, 5.8 ± 0.4% of the label was allocated to the corm. Sucker presence and drought stress each led to an increase in starch accumulation in the corm, but when both stress and a sucker were present, the amount was severely reduced. Furthermore, the second to fifth fully open leaves were the most important source of photo-assimilates in the plant, but the two younger developing leaves assimilated the same amount of carbon as the four active leaves combined. They exported and imported photo-assimilates simultaneously, hence acting as both source and sink. 13C labeling has allowed us to quantify source and sink strengths of different plant parts, as well as the carbon fluxes between them. We conclude that drought stress and sucker presence, respectively causing a reduction in supply and an increase in carbon demand, both increased the relative amount of carbon allocated to storage tissues. Their combination, however, led to insufficient availability of assimilates and hence a reduced investment in long-term storage and sucker growth.
Collapse
Affiliation(s)
- Mathilde Vantyghem
- Soil and Water Management & Crop Nutrition Laboratory, Joint FAO/IAEA Centre of Nuclear Techniques in Food and Agriculture, Department of Nuclear Sciences and Applications, International Atomic Energy Agency, Vienna, Austria
- Division of Soil and Water Management, Department of Earth and Environmental Sciences, KU Leuven, Heverlee, Belgium
- Institute of Soil Research, Department of Forest and Soil Sciences, University of Natural Resources and Life Sciences Vienna, Vienna, Austria
| | - Eline Beelen
- Soil and Water Management & Crop Nutrition Laboratory, Joint FAO/IAEA Centre of Nuclear Techniques in Food and Agriculture, Department of Nuclear Sciences and Applications, International Atomic Energy Agency, Vienna, Austria
- Division of Soil and Water Management, Department of Earth and Environmental Sciences, KU Leuven, Heverlee, Belgium
| | - Rebecca Hood-Nowotny
- Institute of Soil Research, Department of Forest and Soil Sciences, University of Natural Resources and Life Sciences Vienna, Vienna, Austria
| | - Roel Merckx
- Division of Soil and Water Management, Department of Earth and Environmental Sciences, KU Leuven, Heverlee, Belgium
| | - Gerd Dercon
- Soil and Water Management & Crop Nutrition Laboratory, Joint FAO/IAEA Centre of Nuclear Techniques in Food and Agriculture, Department of Nuclear Sciences and Applications, International Atomic Energy Agency, Vienna, Austria
| |
Collapse
|
9
|
Htwe CSS, Rajkumar S, Pathania P, Agrawal A. Transcriptome Profiling during Sequential Stages of Cryopreservation in Banana ( Musa AAA cv Borjahaji) Shoot Meristem. Plants (Basel) 2023; 12:1165. [PMID: 36904022 PMCID: PMC10005800 DOI: 10.3390/plants12051165] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/19/2023] [Revised: 02/02/2023] [Accepted: 02/06/2023] [Indexed: 06/18/2023]
Abstract
Cryopreservation approaches have been implemented in gene banks as a strategy to back up plant genetic resource collections that are vegetatively propagated. Different strategies have been employed to effectively cryopreserve plant tissue. There is little information on the cellular processes and molecular adjustments that confer resilience to the multiple stresses imposed during a cryoprotocol. In the present work, the cryobionomics of banana (Musa sp.), a non-model species, was investigated through the transcriptomic approach using RNA-Seq. Proliferating meristems of in vitro explants (Musa AAA cv 'Borjahaji') were cryopreserved using the droplet-vitrification technique. Transcriptome profiling analysis of eight cDNA libraries including the bio-replicates for T0 (stock cultures (control tissue), T1 (high sucrose pre-cultured), T2 (vitrification solution-treated) and T3 (liquid nitrogen-treated) meristem tissues was carried out. The raw reads obtained were mapped with a Musa acuminata reference genome sequence. A total of 70 differentially expressed genes (DEGs) comprising 34 upregulated and 36 downregulated were identified in all three phases as compared to control (T0). Among the significant DEGs (>log FC 2.0), during sequential steps, 79 in T1, 3 in T2 and the 4 in T3 were upregulated and 122 in T1, 5 in T2 and 9 in T3 were downregulated. Gene ontology (GO) enrichment analysis showed that these significant DEGs were involved in the upregulation of biological process (BP-170), cellular component (CC-10) and molecular function (MF-94) and downregulation of biological process (BP-61), cellular component (CC-3) and molecular function (MF-56). The Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis showed that DEGs were involved in the biosynthesis of secondary metabolites, glycolysis/gluconeogenesis, MAPK signaling, EIN 3-lke 1 protein, 3-ketoacy-CoA synthase 6-like, and fatty acid elongation during cryopreservation. For the first time, a comprehensive transcript profiling during four stages of cryopreservation in banana were carried out, which will pave the way for devising an effective cryopreservation protocol.
Collapse
Affiliation(s)
- Chaw Su Su Htwe
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi 110012, India
- Division of Plant Genetic Resources, ICAR-Indian Agricultural Research Institute, Pusa Campus, New Delhi 110012, India
| | - Subramani Rajkumar
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi 110012, India
| | - Pooja Pathania
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi 110012, India
| | - Anuradha Agrawal
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi 110012, India
| |
Collapse
|
10
|
Negi S, Bhakta S, Ganapathi TR, Tak H. MusaNAC29-like transcription factor improves stress tolerance through modulation of phytohormone content and expression of stress responsive genes. Plant Sci 2023; 326:111507. [PMID: 36332768 DOI: 10.1016/j.plantsci.2022.111507] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/26/2022] [Revised: 09/20/2022] [Accepted: 10/19/2022] [Indexed: 05/20/2023]
Abstract
Understanding the molecular mechanisms governed by genes and cross-talks among stress signaling pathways is vital for generating a broad view on stress responses in plants. Here, we analysed the effects of MusaNAC29-like transcription factor of banana on stress responses and report the quantitative modulation of phytohormone and flavonoid content and analysed the growth parameters and yield trait in transgenic banana plants. Expression of MusaNAC29-like transcription factor was strongly altered in responses to stress conditions and application of signaling molecules. Under control conditions, PMusaNAC29-like-GUS is activated in cells bordering xylem vessel elements and is strongly triggered in other cells types after influence of salicylic acid and abscisic acid. Transgenic banana plants of cultivar Rasthali and Grand Naine overexpressing MusaNAC29-like transcription factor displayed superior tolerance towards drought and salinity stress. LC-MS analysis indicated elevated levels of jasmonic acid and salicylic acid while content of zeatin was significantly reduced in leaves of transgenic banana lines. Transgenic banana lines displayed increased levels of gallic acid, coumaric acid, naringenin, chlorogenic acid while levels of vanillic acid and piperine were significantly reduced. Expression of stress related genes coding for antioxidants, thiol peptidase proteins, cold-regulated proteins, late embryogenesis abundant proteins, ethylene-responsive transcription factors, bHLH proteins, jasmonate-zim-domain proteins and WRKY transcription factors were significantly induced in transgenic banana lines. Though MusaNAC29-like transcription factor improved stress tolerance, its overexpression resulted in retarded growth of transgenic lines resulting in reduced yield of banana fruits.
Collapse
Affiliation(s)
- Sanjana Negi
- Department of Biotechnology, University of Mumbai, Mumbai 400098, India.
| | - Subham Bhakta
- Plant Cell Culture Technology Section, Nuclear Agriculture and Biotechnology Division, Bhabha Atomic Research Centre, Trombay, Mumbai 400085, India
| | - T R Ganapathi
- Plant Cell Culture Technology Section, Nuclear Agriculture and Biotechnology Division, Bhabha Atomic Research Centre, Trombay, Mumbai 400085, India; Homi Bhabha National Institute, Anushakti Nagar, Mumbai 400094, India
| | - Himanshu Tak
- Plant Cell Culture Technology Section, Nuclear Agriculture and Biotechnology Division, Bhabha Atomic Research Centre, Trombay, Mumbai 400085, India; Homi Bhabha National Institute, Anushakti Nagar, Mumbai 400094, India.
| |
Collapse
|
11
|
Chen W, Dong T, Chen Y, Lin P, Wang C, Chen K, Tang Y, Wang M, Liu J, Yu H. Combined analysis of mRNA and miRNA reveals the banana potassium absorption regulatory network and validation of miRNA160a. Plant Mol Biol 2022; 110:531-543. [PMID: 35962899 DOI: 10.1007/s11103-022-01304-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/19/2022] [Accepted: 07/21/2022] [Indexed: 06/15/2023]
Abstract
Potassium (K) has an important effect on the growth and development of plants. Banana contains higher K content than many other fruits, and its plant requires more K nutrient in soil. However, the soil in the banana-producing areas in China is generally deficient in K. Therefore, understanding the mechanism of banana K absorption may assist in providing effective strategy to solve this problem. This study used two banana varieties with contrasting K tolerance, 'Guijiao No. 1' (low-K tolerant), and 'Brazilian banana' (low-K sensitive)to investigate K absorption mechanisms in response to low-K stress through miRNA and mRNA sequencing analysis. Under low-K condition, 'Guijiao No.1' showed higher plant height, dry weight, tissue K content and ATPase activity. Analysis of transcription factors showed that they were mainly in the types or classes of MYB, AP-EREBP, bHLH, etc. The sequencing results showed that 'Guijiao No. 1' had 776 differentially expressed genes (DEGs) and 27 differentially expressed miRNAs (DEMs), and 'Brazilian banana' had 71 DEGs and 14 DEMs between normal and low K treatments. RT-qPCR results showed that all miRNAs and mRNAs showed similar expression patterns with RNA-Seq and transcriptome. miRNA regulatory network was constructed by integrated analysis of miRNA-mRNA data. miR160a was screened out as a key miRNA, and preliminary functional validation was performed. Arabidopsis overexpressing miR160a showed reduced tolerance to low K, and inhibited phenotypic traits such as shorter root length, and reduced K accumulation. The overexpressed miR160a had a targeting relationship with ARF10 and ARF16 in Arabidopsis. These results indicate that miR160a may regulate K absorption in bananas through the auxin pathway. This study provides a theoretical basis for further study on the molecular mechanism of banana response to low potassium stress.
Collapse
Affiliation(s)
- Wenliang Chen
- Institute of Horticulture Science and Engineering, Huaqiao University, Xiamen, 361021, China
| | - Tao Dong
- Institute of Fruit Tree ResearchKey Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization, Ministry of Agriculture and Rural AffairsGuangdong Provincial Key Laboratory of Tropical and Subtropical Fruit Tree Research, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640, China
| | - Yinglong Chen
- School of Agriculture and Environment, The UWA Institute of Agriculture, The University of Western Australia, Perth, 6009 WA, Australia
| | - Ping Lin
- Institute of Horticulture Science and Engineering, Huaqiao University, Xiamen, 361021, China
| | - Chuqiao Wang
- Institute of Horticulture Science and Engineering, Huaqiao University, Xiamen, 361021, China
| | - Kelin Chen
- Institute of Horticulture Science and Engineering, Huaqiao University, Xiamen, 361021, China
| | - Yi Tang
- Institute of Horticulture Science and Engineering, Huaqiao University, Xiamen, 361021, China
| | - Mingyuan Wang
- Institute of Horticulture Science and Engineering, Huaqiao University, Xiamen, 361021, China.
| | - Jianfu Liu
- Institute of Horticulture Science and Engineering, Huaqiao University, Xiamen, 361021, China.
| | - Hailing Yu
- Institute of Horticulture Science and Engineering, Huaqiao University, Xiamen, 361021, China.
| |
Collapse
|
12
|
Umber M, Pressat G, Fort G, Plaisir Pineau K, Guiougiou C, Lambert F, Farinas B, Pichaut JP, Janzac B, Delos JM, Salmon F, Dubois C, Teycheney PY. Risk Assessment of Infectious Endogenous Banana Streak Viruses in Guadeloupe. Front Plant Sci 2022; 13:951285. [PMID: 35898217 PMCID: PMC9310019 DOI: 10.3389/fpls.2022.951285] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/23/2022] [Accepted: 06/20/2022] [Indexed: 06/15/2023]
Abstract
Infectious alleles of endogenous banana streak viruses (eBSVs) are present in the genome of all banana interspecific cultivars, including plantains and cooking types. Activation of these infectious eBSV alleles by biotic and abiotic stresses leads to spontaneous infections by cognate viruses and raises concerns about their ability to promote outbreaks of banana streak viruses under field cultivation conditions. We undertook a comprehensive risk assessment study of infectious eBSV alleles of species BSOLV, BSGFV and BSIMV in banana interspecific cultivars in Guadeloupe, a tropical island of the Caribbean where bananas are grown for export and local markets. We carried out a prevalence survey of BSOLV, BSGFV and BSIMV species in a range of cultivars grown in Guadeloupe. Our results suggest that BSOLV and BSGFV infections arise from the activation of infectious eBSVs rather than vector-borne transmission and point to a correlation between altitude and infection rates in interspecific hybrids with AAB genotypes. We studied the dynamics of activation of infectious eBSOLV and eBSGFV alleles by tissue culture and field cultivation in a range of cultivars. We showed that tissue culture and field cultivation trigger distinct activation pathways, resulting in distinct activation patterns. We also showed that activation decreased over time during cell culture and field cultivation and that BSV infections arising from the activation of infectious eBSV alleles cause symptomless infections in the most cultivated plantain in Guadeloupe, French Clair. Overall, our study shows that the risk of BSV outbreaks resulting from the activation of infectious eBSVs in plantain originating from vegetative multiplication is negligible in Guadeloupe.
Collapse
Affiliation(s)
- Marie Umber
- CIRAD, UMR AGAP Institute, Guadeloupe, France
- UMR AGAP Institute, University of Montpellier, CIRAD, INRAE, Institute Agro, Guadeloupe, France
| | - Gersende Pressat
- CIRAD, UMR AGAP Institute, Guadeloupe, France
- UMR AGAP Institute, University of Montpellier, CIRAD, INRAE, Institute Agro, Guadeloupe, France
| | - Guillaume Fort
- CIRAD, UMR AGAP Institute, Guadeloupe, France
- UMR AGAP Institute, University of Montpellier, CIRAD, INRAE, Institute Agro, Guadeloupe, France
| | - Kaïssa Plaisir Pineau
- CIRAD, UMR AGAP Institute, Guadeloupe, France
- UMR AGAP Institute, University of Montpellier, CIRAD, INRAE, Institute Agro, Guadeloupe, France
| | - Chantal Guiougiou
- CIRAD, UMR AGAP Institute, Guadeloupe, France
- UMR AGAP Institute, University of Montpellier, CIRAD, INRAE, Institute Agro, Guadeloupe, France
| | - Frédéric Lambert
- CIRAD, UMR AGAP Institute, Guadeloupe, France
- UMR AGAP Institute, University of Montpellier, CIRAD, INRAE, Institute Agro, Guadeloupe, France
| | - Benoît Farinas
- CIRAD, UMR AGAP Institute, Guadeloupe, France
- UMR AGAP Institute, University of Montpellier, CIRAD, INRAE, Institute Agro, Guadeloupe, France
| | - Jean-Philippe Pichaut
- CIRAD, UMR AGAP Institute, Guadeloupe, France
- UMR AGAP Institute, University of Montpellier, CIRAD, INRAE, Institute Agro, Guadeloupe, France
| | - Bérenger Janzac
- CIRAD, UMR AGAP Institute, Guadeloupe, France
- UMR AGAP Institute, University of Montpellier, CIRAD, INRAE, Institute Agro, Guadeloupe, France
| | - Jean-Marie Delos
- CIRAD, UMR AGAP Institute, Guadeloupe, France
- UMR AGAP Institute, University of Montpellier, CIRAD, INRAE, Institute Agro, Guadeloupe, France
| | - Frédéric Salmon
- CIRAD, UMR AGAP Institute, Guadeloupe, France
- UMR AGAP Institute, University of Montpellier, CIRAD, INRAE, Institute Agro, Guadeloupe, France
| | - Cécile Dubois
- CIRAD, UMR AGAP Institute, Montpellier, France
- UMR AGAP Institute, University of Montpellier, CIRAD, INRAE, Institute Agro, Montpellier, France
| | - Pierre-Yves Teycheney
- CIRAD, UMR AGAP Institute, Guadeloupe, France
- UMR AGAP Institute, University of Montpellier, CIRAD, INRAE, Institute Agro, Guadeloupe, France
| |
Collapse
|
13
|
Milton A, Muhanguzi D, Male A, Kajubi A, Buah S, Kubiriba J, Tumuhimbise R. Analysis of Genetic Diversity of Banana Weevils (Cosmopolites sordidus) (Coleoptera: Curculionidae) Using Transcriptome-Derived Simple Sequence Repeat Markers. J Econ Entomol 2022; 115:637-646. [PMID: 35021224 DOI: 10.1093/jee/toab213] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/30/2021] [Indexed: 06/14/2023]
Abstract
The banana weevil, Cosmopolites sordidus (Germar) (Coleoptera: Curculionidae) is an economically important insect pest of bananas. It causes up to 100% yield losses and substantial lifespan reduction in bananas. Advances in genomics, proteomics, and sequencing technologies have provided powerful pathways to genotyping disastrous pests such as C. sordidus. However, such technologies are often not available to the majority of rural subtropical African banana growers and pest control managers. This study was therefore motivated by the need to create cheap and easily accessible C. sordidus genotyping methods that could be deployed by banana pest control managers to the benefit of C. sordidus control programs in the tropics where such advanced technologies are not readily accessible. We used an in-house C. sordidus transcriptome from the an-ongoing study from which we mined an array of simple sequence repeat (SSR) markers. Of these, six highly polymorphic transcriptome-derived SSR markers were used to successfully genotype within and among banana weevil population genetic diversity of 12 C. sordidus populations collected from four banana-growing agro-ecological zones (AEZs) in Uganda. The developed transcriptome-derived SSR markers can be used by researchers in population genetics for characterization of the C. sordidus and identification of new genes that are linked to traits of particular interest. The significant genetic diversity revealed in C. sordidus provides pertinent information for integrated pest management strategies.
Collapse
Affiliation(s)
- Ali Milton
- National Agricultural Research Laboratories-Kawanda, Kampala, Uganda
- College of Veterinary Medicine Animal Resources and Biosecurity, Makerere University, Kampala, Uganda
| | - Dennis Muhanguzi
- College of Veterinary Medicine Animal Resources and Biosecurity, Makerere University, Kampala, Uganda
| | - Allan Male
- International Center for Tropical Agriculture, Kampala, Uganda
| | - Ali Kajubi
- National Agricultural Research Laboratories-Kawanda, Kampala, Uganda
| | - Stephen Buah
- National Agricultural Research Laboratories-Kawanda, Kampala, Uganda
| | - Jerome Kubiriba
- National Agricultural Research Laboratories-Kawanda, Kampala, Uganda
| | - Robooni Tumuhimbise
- Rwebitaba Zonal Agricultural Research and Development Institute, Fort-Portal, Uganda
| |
Collapse
|
14
|
Song W, Ji C, Chen Z, Cai H, Wu X, Shi C, Wang S. Comparative Analysis the Complete Chloroplast Genomes of Nine Musa Species: Genomic Features, Comparative Analysis, and Phylogenetic Implications. Front Plant Sci 2022; 13:832884. [PMID: 35222490 PMCID: PMC8866658 DOI: 10.3389/fpls.2022.832884] [Citation(s) in RCA: 18] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/10/2021] [Accepted: 01/07/2022] [Indexed: 06/12/2023]
Abstract
Musa (family Musaceae) is monocotyledonous plants in order Zingiberales, which grows in tropical and subtropical regions. It is one of the most important tropical fruit trees in the world. Herein, we used next-generation sequencing technology to assemble and perform in-depth analysis of the chloroplast genome of nine new Musa plants for the first time, including genome structure, GC content, repeat structure, codon usage, nucleotide diversity and etc. The entire length of the Musa chloroplast genome ranged from 167,975 to 172,653 bp, including 113 distinct genes comprising 79 protein-coding genes, 30 transfer RNA (tRNA) genes and four ribosomal RNA (rRNA) genes. In comparative analysis, we found that the contraction and expansion of the inverted repeat (IR) regions resulted in the doubling of the rps19 gene. The several non-coding sites (psbI-atpA, atpH-atpI, rpoB-petN, psbM-psbD, ndhf-rpl32, and ndhG-ndhI) and three genes (ycf1, ycf2, and accD) showed significant variation, indicating that they have the potential of molecular markers. Phylogenetic analysis based on the complete chloroplast genome and coding sequences of 77 protein-coding genes confirmed that Musa can be mainly divided into two groups. These genomic sequences provide molecular foundation for the development and utilization of Musa plants resources. This result may contribute to the understanding of the evolution pattern, phylogenetic relationships as well as classification of Musa plants.
Collapse
Affiliation(s)
- Weicai Song
- College of Marine Science and Biological Engineering, Qingdao University of Science and Technology, Qingdao, China
| | - Chuxuan Ji
- Department of Life Sciences, Imperial College London, Silwood Park, London, United Kingdom
| | - Zimeng Chen
- College of Marine Science and Biological Engineering, Qingdao University of Science and Technology, Qingdao, China
| | - Haohong Cai
- College of Marine Science and Biological Engineering, Qingdao University of Science and Technology, Qingdao, China
| | - Xiaomeng Wu
- College of Marine Science and Biological Engineering, Qingdao University of Science and Technology, Qingdao, China
| | - Chao Shi
- College of Marine Science and Biological Engineering, Qingdao University of Science and Technology, Qingdao, China
- Plant Germplasm and Genomics Center, Germplasm Bank of Wild Species in Southwest China, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, China
| | - Shuo Wang
- College of Marine Science and Biological Engineering, Qingdao University of Science and Technology, Qingdao, China
| |
Collapse
|
15
|
Sirireung N, Duangupama T, Suriyachadkun C, Thawai C. Nocardia acididurans sp. nov., an acid-tolerant actinobacterium isolated from bio-fertilizer of Musa species. Int J Syst Evol Microbiol 2021; 71. [PMID: 34928201 DOI: 10.1099/ijsem.0.005170] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel acid-tolerant actinobacterium (strain LPG 2T), which formed fragmented substrate mycelia, was isolated from bio-fertiliser of Musa spp. collected from Lampang Province, Thailand. Its morphological and chemotaxonomic properties, e.g., the presence of mycolic acid and MK-8 (H4ω-cycl) in the cells, showed that strain LPG 2T was a member of the genus Nocardia. 16S rRNA gene sequence analysis revealed that this strain was closely related to Nocardia otitidiscaviarum NBRC 14405T (98.7 %). The low average nucleotide identity-blast and digital DNA-DNA hybridization values (<78.6 and <24.0 %, respectively), and several phenotypic differences between strain LPG 2T and its related Nocardia type strains, indicated that the strain merits classification as representing a novel species of the genus Nocardia, for which we propose the name Nocardia acididurans sp. nov. The type strain is LPG 2T (=TBRC 11242T=NBRC 114293T).
Collapse
Affiliation(s)
- Narissara Sirireung
- Department of Biology, Faculty of Science, King Mongkut's Institute of Technology Ladkrabang, Bangkok 10520, Thailand
| | - Thitikorn Duangupama
- Department of Biology, Faculty of Science, King Mongkut's Institute of Technology Ladkrabang, Bangkok 10520, Thailand
| | - Chanwit Suriyachadkun
- Thailand Bioresource Research Center (TBRC), National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency (NSTDA), 113 Thailand Science Park, Phaholyothin Road, Khlong Nueng, Khlong Luang, Pathum Thani, 12120, Thailand
| | - Chitti Thawai
- Department of Biology, Faculty of Science, King Mongkut's Institute of Technology Ladkrabang, Bangkok 10520, Thailand.,Actinobacterial Research Unit, Faculty of Science, King Mongkut's Institute of Technology Ladkrabang, Bangkok 10520, Thailand
| |
Collapse
|
16
|
Abstract
Banana cultivation has increased significantly over the last century to meet the growing demand for this popular fruit. Originating in Southeast Asia, bananas are now produced in >135 different countries in tropical and subtropical regions of the world. Most of this expansion of production is based on a single banana variety, Cavendish, which makes up almost all the export trade grown in large-scale monocultures and a large part of the local trade and represents >40% of all bananas grown globally. Over the last century several major diseases of the banana have emerged and widely expanded their geographic ranges. Cultivars within the Cavendish variety are highly susceptible to these diseases, including yellow Sigatoka, black leaf streak, Eumusae leaf spot, freckle, Fusarium wilt tropical race 4, banana bunchy top, and the bacterial wilts Moko, Xanthomonas wilt, and banana Blood disease. This review graphically illustrates the emergence and rapid intercontinental spread of these diseases and discusses several major disease epidemics in bananas. Evidently, the large-scale monoculture based on the single variety Cavendish has resulted in an extreme level of genetic vulnerability. The resistance to diversification in the Cavendish production chain and the lack of investment in genetics and plant breeding in the recent past means that currently limited genetic solutions are available to replace the Cavendish banana with a set of market acceptable resistant varieties from a range of different genetic backgrounds.
Collapse
Affiliation(s)
- André Drenth
- Centre for Horticultural Science, The University of Queensland, Brisbane, QLD, Australia
| | - Gert Kema
- Wageningen University and Research, Laboratory of Phytopathology, Wageningen, The Netherlands
| |
Collapse
|
17
|
Dumartinet T, Ravel S, Roussel V, Perez-Vicente L, Aguayo J, Abadie C, Carlier J. Complex adaptive architecture underlies adaptation to quantitative host resistance in a fungal plant pathogen. Mol Ecol 2021; 31:1160-1179. [PMID: 34845779 DOI: 10.1111/mec.16297] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2021] [Revised: 11/12/2021] [Accepted: 11/17/2021] [Indexed: 11/26/2022]
Abstract
Plant pathogens often adapt to plant genetic resistance so characterization of the architecture underlying such an adaptation is required to understand the adaptive potential of pathogen populations. Erosion of banana quantitative resistance to a major leaf disease caused by polygenic adaptation of the causal agent, the fungus Pseudocercospora fijiensis, was recently identified in the northern Caribbean region. Genome scan and quantitative genetics approaches were combined to investigate the adaptive architecture underlying this adaptation. Thirty-two genomic regions showing host selection footprints were identified by pool sequencing of isolates collected from seven plantation pairs of two cultivars with different levels of quantitative resistance. Individual sequencing and phenotyping of isolates from one pair revealed significant and variable levels of correlation between haplotypes in 17 of these regions with a quantitative trait of pathogenicity (the diseased leaf area). The multilocus pattern of haplotypes detected in the 17 regions was found to be highly variable across all the population pairs studied. These results suggest complex adaptive architecture underlying plant pathogen adaptation to quantitative resistance with a polygenic basis, redundancy, and a low level of parallel evolution between pathogen populations. Candidate genes involved in quantitative pathogenicity and host adaptation of P. fijiensis were identified in genomic regions by combining annotation analysis with available biological data.
Collapse
Affiliation(s)
- Thomas Dumartinet
- CIRAD, UMR PHIM, Montpellier, France.,PHIM, Univ Montpellier, INRAe, CIRAD, Montpellier SupAgro, Montpellier, France
| | - Sébastien Ravel
- CIRAD, UMR PHIM, Montpellier, France.,PHIM, Univ Montpellier, INRAe, CIRAD, Montpellier SupAgro, Montpellier, France
| | - Véronique Roussel
- CIRAD, UMR PHIM, Montpellier, France.,PHIM, Univ Montpellier, INRAe, CIRAD, Montpellier SupAgro, Montpellier, France
| | | | - Jaime Aguayo
- ANSES, Laboratoire de la Santé des Végétaux (LSV), Unité de Mycologie, Malzéville, France
| | - Catherine Abadie
- CIRAD, UMR PHIM, Montpellier, France.,PHIM, Univ Montpellier, INRAe, CIRAD, Montpellier SupAgro, Montpellier, France
| | - Jean Carlier
- CIRAD, UMR PHIM, Montpellier, France.,PHIM, Univ Montpellier, INRAe, CIRAD, Montpellier SupAgro, Montpellier, France
| |
Collapse
|
18
|
Devarajan R, Jayaraman JK, Somasundaram SM, Ragupathy S, Raman P, Sathiamoorthy K, Subbaraya U. Genetic diversity in fresh fruit pulp mineral profile of 100 Indian Musa accessions. Food Chem 2021; 361:130080. [PMID: 34029894 DOI: 10.1016/j.foodchem.2021.130080] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2020] [Revised: 03/26/2021] [Accepted: 05/08/2021] [Indexed: 10/21/2022]
Abstract
Evaluation of 100 Indian Musa accessions (IMA) for nine elements in their fresh fruit pulp (FFP) revealed genetic variability of 4.7-fold for K & Mg to 111.1-fold for Ca but, only with either highly or moderately positively skewed distribution. The descending order of mineral concentrations (MC) was K > Ca > Na > Mg > Fe > Mn > B > P > Zn. 100 g FFP contributes fairly about 5 (Fe) to 10% (Mn, Ca & Mg) of daily mineral requirement of Indians. Calcium (97%) and Fe (96%) showed the highest heritability while Zn exhibited lowest (85%). Significantly positive correlation was observed for all minerals. Magnesium had maximum direct effect on Fe content followed by Mn, Zn and Na in path analysis. Both principal component analysis and cluster analysis failed to group the IMA according to their ploidy/genome/subgroups. Twenty commercial cultivars were placed in top 10 positions based on their MC. Besides Ca and Mg, IMA were richer for all micronutrients than the world's Musa gene-pool.
Collapse
Affiliation(s)
- Ramajayam Devarajan
- ICAR-National Research Centre for Banana, Tiruchirapalli 620 102, Tamil Nadu, India.
| | | | | | | | - Pitchaimuthu Raman
- ICAR-National Research Centre for Banana, Tiruchirapalli 620 102, Tamil Nadu, India
| | | | - Uma Subbaraya
- ICAR-National Research Centre for Banana, Tiruchirapalli 620 102, Tamil Nadu, India
| |
Collapse
|
19
|
Kouassi HA, Assemand EF, Gibert O, Maraval I, Ricci J, Thiemele DEF, Bugaud C. Textural and physicochemical predictors of sensory texture and sweetness of boiled plantain. Int J Food Sci Technol 2021; 56:1160-1170. [PMID: 33776227 PMCID: PMC7984083 DOI: 10.1111/ijfs.14765] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2020] [Revised: 08/01/2020] [Accepted: 08/05/2020] [Indexed: 12/01/2022]
Abstract
Boiled pulp is a major form of consumption for plantain. We assessed instrumental (puncture test and texture profile analysis) and sensory texture attributes of 13 plantain cultivars, two cooking hybrids and one dessert banana at different stages of ripeness after cooking in boiling water. Firmness, chewiness, stickiness, mealiness, sweetness and moistness described sensory variability, which was greater between stages of ripeness than between types of cultivars. Firmness and chewiness were well‐predicted by instrumental force and hardness (r2 > 0.72), and by soluble solid and dry matter content (r2 > 0.85). Complementary sensitivity analysis revealed that a pulp puncture force or a hardness of at least 2.1 N or of 0.3 N/mm2 was needed before a difference in firmness or chewiness could be perceived; a Brix of 3.7 was required to ensure a detectable difference in sweetness. Rheological and biochemical predictors can be useful for breeders for high‐throughput phenotyping.
Collapse
Affiliation(s)
- Hermann Antonin Kouassi
- Department of Food Sciences and Technologies Laboratory of Food Biochemistry and Technology of Tropical Products University Nangui Abrogoua 02 BP 801 Abidjan 02 Ivory Coast
| | - Emma Fernande Assemand
- Department of Food Sciences and Technologies Laboratory of Food Biochemistry and Technology of Tropical Products University Nangui Abrogoua 02 BP 801 Abidjan 02 Ivory Coast
| | - Olivier Gibert
- CIRAD UMR QUALISUD F-34398 Montpellier France.,QUALISUD Univ Montpellier CIRAD Montpellier Institut Agro Univ d'Avignon Univ de la Réunion Montpellier France
| | - Isabelle Maraval
- CIRAD UMR QUALISUD F-34398 Montpellier France.,QUALISUD Univ Montpellier CIRAD Montpellier Institut Agro Univ d'Avignon Univ de la Réunion Montpellier France
| | - Julien Ricci
- CIRAD UMR QUALISUD F-34398 Montpellier France.,QUALISUD Univ Montpellier CIRAD Montpellier Institut Agro Univ d'Avignon Univ de la Réunion Montpellier France
| | | | - Christophe Bugaud
- CIRAD UMR QUALISUD F-34398 Montpellier France.,QUALISUD Univ Montpellier CIRAD Montpellier Institut Agro Univ d'Avignon Univ de la Réunion Montpellier France
| |
Collapse
|
20
|
Hill R, Llewellyn T, Downes E, Oddy J, MacIntosh C, Kallow S, Panis B, Dickie JB, Gaya E. Seed Banks as Incidental Fungi Banks: Fungal Endophyte Diversity in Stored Seeds of Banana Wild Relatives. Front Microbiol 2021; 12:643731. [PMID: 33841366 PMCID: PMC8024981 DOI: 10.3389/fmicb.2021.643731] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2020] [Accepted: 02/19/2021] [Indexed: 01/19/2023] Open
Abstract
Seed banks were first established to conserve crop genetic diversity, but seed banking has more recently been extended to wild plants, particularly crop wild relatives (CWRs) (e.g., by the Millennium Seed Bank (MSB), Royal Botanic Gardens Kew). CWRs have been recognised as potential reservoirs of beneficial traits for our domesticated crops, and with mounting evidence of the importance of the microbiome to organismal health, it follows that the microbial communities of wild relatives could also be a valuable resource for crop resilience to environmental and pathogenic threats. Endophytic fungi reside asymptomatically inside all plant tissues and have been found to confer advantages to their plant host. Preserving the natural microbial diversity of plants could therefore represent an important secondary conservation role of seed banks. At the same time, species that are reported as endophytes may also be latent pathogens. We explored the potential of the MSB as an incidental fungal endophyte bank by assessing diversity of fungi inside stored seeds. Using banana CWRs in the genus Musa as a case-study, we sequenced an extended ITS-LSU fragment in order to delimit operational taxonomic units (OTUs) and used a similarity and phylogenetics approach for classification. Fungi were successfully detected inside just under one third of the seeds, with a few genera accounting for most of the OTUs-primarily Lasiodiplodia, Fusarium, and Aspergillus-while a large variety of rare OTUs from across the Ascomycota were isolated only once. Fusarium species were notably abundant-of significance in light of Fusarium wilt, a disease threatening global banana crops-and so were targeted for additional sequencing with the marker EF1α in order to delimit species and place them in a phylogeny of the genus. Endophyte community composition, diversity and abundance was significantly different across habitats, and we explored the relationship between community differences and seed germination/viability. Our results show that there is a previously neglected invisible fungal dimension to seed banking that could well have implications for the seed collection and storage procedures, and that collections such as the MSB are indeed a novel source of potentially useful fungal strains.
Collapse
Affiliation(s)
- Rowena Hill
- Department of Comparative Plant and Fungal Biology, Royal Botanic Gardens, Kew, Richmond, United Kingdom
- School of Biological and Chemical Sciences, Faculty of Science and Engineering, Queen Mary University of London, London, United Kingdom
| | - Theo Llewellyn
- Department of Comparative Plant and Fungal Biology, Royal Botanic Gardens, Kew, Richmond, United Kingdom
- Department of Life Sciences, Faculty of Natural Sciences, Imperial College London, London, United Kingdom
| | - Elizabeth Downes
- Department for Environment, Food and Rural Affairs, London, United Kingdom
| | - Joseph Oddy
- Department of Plant Science, Rothamsted Research, Harpenden, United Kingdom
| | - Catriona MacIntosh
- Department of Comparative Plant and Fungal Biology, Royal Botanic Gardens, Kew, Richmond, United Kingdom
- School of Life Sciences, University of Glasgow, Glasgow, United Kingdom
| | - Simon Kallow
- Collections Department, Royal Botanic Gardens, Kew, Millennium Seed Bank, Ardingly, United Kingdom
- Division of Crop Biotechnics, Department of Biosystems, Faculty of Bioscience Engineering, University of Leuven, Leuven, Belgium
| | - Bart Panis
- Bioversity International, Montpellier, France
| | - John B. Dickie
- Collections Department, Royal Botanic Gardens, Kew, Millennium Seed Bank, Ardingly, United Kingdom
| | - Ester Gaya
- Department of Comparative Plant and Fungal Biology, Royal Botanic Gardens, Kew, Richmond, United Kingdom
| |
Collapse
|
21
|
Carlier J, Bonnot F, Roussel V, Ravel S, Martinez RT, Perez-Vicente L, Abadie C, Wright S. Convergent Adaptation to Quantitative Host Resistance in a Major Plant Pathogen. mBio 2021; 12:e03129-20. [PMID: 33622734 DOI: 10.1128/mBio.03129-20] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Plant pathogens can adapt to quantitative resistance, eroding its effectiveness. The aim of this work was to reveal the genomic basis of adaptation to such a resistance in populations of the fungus Pseudocercospora fijiensis, a major devastating pathogen of banana, by studying convergent adaptation on different cultivars. Samples from P. fijiensis populations showing a local adaptation pattern on new banana hybrids with quantitative resistance were compared, based on a genome scan approach, with samples from traditional and more susceptible cultivars in Cuba and the Dominican Republic. Whole-genome sequencing of pools of P. fijiensis isolates (pool-seq) sampled from three locations per country was conducted according to a paired population design. The findings of different combined analyses highly supported the existence of convergent adaptation on the study cultivars between locations within but not between countries. Five to six genomic regions involved in this adaptation were detected in each country. An annotation analysis and available biological data supported the hypothesis that some genes within the detected genomic regions may play a role in quantitative pathogenicity, including gene regulation. The results suggested that the genetic basis of fungal adaptation to quantitative plant resistance is at least oligogenic, while highlighting the existence of specific host-pathogen interactions for this kind of resistance.IMPORTANCE Understanding the genetic basis of pathogen adaptation to quantitative resistance in plants has a key role to play in establishing durable strategies for resistance deployment. In this context, a population genomic approach was developed for a major plant pathogen (the fungus Pseudocercospora fijiensis causing black leaf streak disease of banana) whereby samples from new resistant banana hybrids were compared with samples from more susceptible conventional cultivars in two countries. A total of 11 genomic regions for which there was strong evidence of selection by quantitative resistance were detected. An annotation analysis and available biological data supported the hypothesis that some of the genes within these regions may play a role in quantitative pathogenicity. These results suggested a polygenic basis of quantitative pathogenicity in this fungal pathogen and complex molecular plant-pathogen interactions in quantitative disease development involving several genes on both sides.
Collapse
|
22
|
Carlier J, Robert S, Roussel V, Chilin-Charles Y, Lubin-Adjanoh N, Gilabert A, Abadie C. Central American and Caribbean population history of the Pseudocercospora fijiensis fungus responsible for the latest worldwide pandemics on banana. Fungal Genet Biol 2021; 148:103528. [PMID: 33515682 DOI: 10.1016/j.fgb.2021.103528] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2020] [Revised: 12/18/2020] [Accepted: 12/30/2020] [Indexed: 10/22/2022]
Abstract
Among the emerging fungal diseases threatening food security, the Pseudocercospora fijiensis fungus causing black leaf streak disease of banana is one of the most marked examples of a recent worldwide pandemic on a major crop. We assessed how this pathogen spread throughout the latest invaded region, i.e. Central America and the Caribbean. We retraced its population history combining detailed monitoring information on disease outbreaks and population genetic analyses based on large-scale sampling of P. fijiensis isolates from 121 locations throughout the region. The results first suggested that sexual reproduction was not lost during the P. fijiensis expansion, even in the insular Caribbean context, and a high level of genotypic diversity was maintained in all the populations studied. The population genetic structure of P. fijiensis and historical data showed that two disease waves swept northward and southward in all banana-producing countries in the study area from an initial entry point in Honduras, probably mainly through gradual stepwise spore dispersal. Serial founder events accompanying the northern and southern waves led to the establishment of two different genetic groups. A different population structure was detected on the latest invaded islands (Martinique, Dominica and Guadeloupe), revealing multiple introductions and admixture events that may have been partly due to human activities. The results of this study highlight the need to step up surveillance to limit the spread of other known emerging diseases of banana spread mainly by humans, but also to curb gene flow between established pathogen populations which could increase their evolutionary potential.
Collapse
Affiliation(s)
- Jean Carlier
- CIRAD, UMR PHIM, F-34398 Montpellier, France; PHIM Plant Health Institute, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France.
| | - Stéphanie Robert
- CIRAD, UMR PHIM, F-34398 Montpellier, France; PHIM Plant Health Institute, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France
| | - Véronique Roussel
- CIRAD, UMR PHIM, F-34398 Montpellier, France; PHIM Plant Health Institute, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France
| | - Yolande Chilin-Charles
- CIRAD, UMR PHIM, F-97130 Capesterre-Belle-Eau, Guadeloupe, France; PHIM Plant Health Institute, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France
| | - Nadia Lubin-Adjanoh
- CIRAD, UMR PHIM, F-97130 Capesterre-Belle-Eau, Guadeloupe, France; PHIM Plant Health Institute, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France
| | - Aude Gilabert
- CIRAD, UMR PHIM, F-34398 Montpellier, France; PHIM Plant Health Institute, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France
| | - Catherine Abadie
- CIRAD, UMR PHIM, F-97130 Capesterre-Belle-Eau, Guadeloupe, France; PHIM Plant Health Institute, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France
| |
Collapse
|
23
|
Arunachalam V, Fernandes CM, Salgaonkar DC. Quick Method to Quantify the Potassium and Sodium Content Variation in Leaves of Banana Varieties. ANAL SCI 2020; 36:1255-1260. [PMID: 32475894 DOI: 10.2116/analsci.20p096] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
The current study describes novel and quick methods for the quantification of K+ and Na+ in banana leaves using Horiba Laqua twin ion meters. Foliar K+ and Na+ content measured by ion meter significantly correlated with standard test values by coefficients of 0.83 and 0.46, respectively. About 48 absorbance values associated with potassium concentrations at wave numbers (1581 to 1583 and 3194 to 3410 cm-1) and 15 sodium associated wave numbers (3773 to 3996 cm-1) predicted potassium and sodium content with regression coefficients of 0.999 and 0.588, respectively. K+ and Na+ cations of fresh leaves in seven banana varieties were quantified using ion meters and new information of differences in the foliar potassium and sodium contents was found between banana varieties within the AAB group. The Rasbali (Silk subgroup) variety possessed greater potassium (5413 mg/L) and sodium (188 mg/L) ions than Amti (Mysore subgroup).
Collapse
Affiliation(s)
- Vadivel Arunachalam
- Horticulture Section, ICAR-CCARI (Indian Council of Agricultural Research-Central Coastal Agricultural Research Institute) Ela
| | - Cristabel M Fernandes
- Horticulture Section, ICAR-CCARI (Indian Council of Agricultural Research-Central Coastal Agricultural Research Institute) Ela
| | - Diksha C Salgaonkar
- Horticulture Section, ICAR-CCARI (Indian Council of Agricultural Research-Central Coastal Agricultural Research Institute) Ela
| |
Collapse
|
24
|
Sambles C, Venkatesan L, Shittu OM, Harrison J, Moore K, Tripathi L, Grant M, Warmington R, Studholme DJ. Genome sequencing data for wild and cultivated bananas, plantains and abacá. Data Brief 2020; 33:106341. [PMID: 33072825 PMCID: PMC7549061 DOI: 10.1016/j.dib.2020.106341] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2020] [Revised: 09/15/2020] [Accepted: 09/17/2020] [Indexed: 11/28/2022] Open
Abstract
We performed shotgun genome sequencing on a total of 19 different Musa genotypes including representatives of wild banana species Musa acuminata and M. balibisiana, allopolyploid bananas and plantains, Fe'i banana, pink banana (also known as hairy banana) and abacá (also known as hemp banana). We aligned sequence reads against a previously sequenced reference genome and assessed ploidy and, in the case of allopolyploids, the contributions of the A and B genomes; this provides important quality-assurance data about the taxonomic identities of the sequenced plant material. These data will be useful for phylogenetics, crop improvement, studies of the complex story of intergenomic recombination in AAB and ABB allotriploid bananas and plantains and can be integrated into resources such as the Banana Genome Hub.
Collapse
Affiliation(s)
| | | | | | - James Harrison
- Biosciences, University of Exeter, Exeter EX4 4QD, United Kingdom
| | - Karen Moore
- Biosciences, University of Exeter, Exeter EX4 4QD, United Kingdom
| | - Leena Tripathi
- International Institute of Tropical Agriculture, P.O. Box 30709, Nairobi, Kenya
| | - Murray Grant
- Life Sciences, University of Warwick, Coventry CV4 7AL, United Kingdom
| | | | | |
Collapse
|
25
|
Kallow S, Longin K, Sleziak NF, Janssens SB, Vandelook F, Dickie J, Swennen R, Paofa J, Carpentier S, Panis B. Challenges for Ex Situ Conservation of Wild Bananas: Seeds Collected in Papua New Guinea Have Variable Levels of Desiccation Tolerance. Plants (Basel) 2020; 9:E1243. [PMID: 32967145 DOI: 10.3390/plants9091243] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/30/2020] [Revised: 09/16/2020] [Accepted: 09/17/2020] [Indexed: 12/24/2022]
Abstract
Ex situ seed conservation of banana crop wild relatives (Musa spp. L.), is constrained by critical knowledge gaps in their storage and germination behaviour. Additionally, challenges in collecting seeds from wild populations impact the quality of seed collections. It is, therefore, crucial to evaluate the viability of seeds from such collecting missions in order to improve the value of future seed collections. We evaluate the seed viability of 37 accessions of seven Musa species, collected from wild populations in Papua New Guinea, during two collecting missions. Seeds from one mission had already been stored in conventional storage (dried for four months at 15% relative humidity, 20 °C and stored for two months at 15% relative humdity, −20 °C), so a post-storage test was carried out. Seeds from the second mission were assessed freshly extracted and following desiccation. We used embryo rescue techniques to overcome the barrier of germinating in vivo Musa seeds. Seeds from the first mission had low viability (19 ± 27% mean and standard deviation) after storage for two months at 15% relative humidity and −20 °C. Musa balbisiana Colla seeds had significantly higher post-storage germination than other species (p < 0.01). Desiccation reduced germination of the seeds from the second collecting mission, from 84 ± 22% (at 16.7 ± 2.4% moisture content) to 36 ± 30% (at 2.4 ± 0.8% moisture content). There was considerable variation between and (to a lesser extent) within accessions, a proportion of individual seeds of all but one species (Musa ingens N.W.Simmonds) survived desiccation and sub-zero temperature storage. We identified that seeds from the basal end of the infructescence were less likely to be viable after storage (p < 0.001); and made morphological observations that identify seeds and infructescences with higher viability in relation to their developmental maturity. We highlight the need for research into seed eco-physiology of crop wild relatives in order to improve future collecting missions.
Collapse
|
26
|
Abstract
Climate change has significantly altered species distributions in the wild and has the potential to affect the interactions between pests and diseases and their human, animal and plant hosts. While several studies have projected changes in disease distributions in the future, responses to historical climate change are poorly understood. Such analyses are required to dissect the relative contributions of climate change, host availability and dispersal to the emergence of pests and diseases. Here, we model the influence of climate change on the most damaging disease of a major tropical food plant, Black Sigatoka disease of banana. Black Sigatoka emerged from Asia in the late twentieth Century and has recently completed its invasion of Latin American and Caribbean banana-growing areas. We parametrize an infection model with published experimental data and drive the model with hourly microclimate data from a global climate reanalysis dataset. We define infection risk as the sum of the number of modelled hourly spore cohorts that infect a leaf over a time interval. The model shows that infection risk has increased by a median of 44.2% across banana-growing areas of Latin America and the Caribbean since the 1960s, due to increasing canopy wetness and improving temperature conditions for the pathogen. Thus, while increasing banana production and global trade have probably facilitated Black Sigatoka establishment and spread, climate change has made the region increasingly conducive for plant infection. This article is part of the theme issue ‘Modelling infectious disease outbreaks in humans, animals and plants: approaches and important themes’. This issue is linked with the subsequent theme issue ‘Modelling infectious disease outbreaks in humans, animals and plants: epidemic forecasting and control’.
Collapse
Affiliation(s)
- Daniel P Bebber
- Department of Biosciences, University of Exeter , EX4 4QD Exeter , UK
| |
Collapse
|
27
|
Kaushal M, Swennen R, Mahuku G. Unlocking the Microbiome Communities of Banana ( Musa spp.) under Disease Stressed ( Fusarium wilt) and Non-Stressed Conditions. Microorganisms 2020; 8:E443. [PMID: 32245146 DOI: 10.3390/microorganisms8030443] [Citation(s) in RCA: 27] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2020] [Revised: 03/08/2020] [Accepted: 03/14/2020] [Indexed: 02/06/2023] Open
Abstract
We assessed the diversity, structure, and assemblage of bacterial and fungal communities associated with banana plants with and without Fusarium oxysporum f. sp. cubense (Foc) symptoms. A total of 117,814 bacterial and 17,317 fungal operational taxonomy units (OTUs) were identified in the rhizosphere, roots, and corm of the host plant. Results revealed that bacterial and fungal microbiota present in roots and corm primarily emanated from the rhizosphere. The composition of bacterial communities in the rhizosphere, roots, and corm were different, with more diversity observed in the rhizosphere and less in the corm. However, distinct sample types i.e., without (asymptomatic) and with (symptomatic) Fusarium symptoms were the major drivers of the fungal community composition. Considering the high relative abundance among samples, we identified core microbiomes with bacterial and fungal OTUs classified into 20 families and colonizing distinct plant components of banana. Our core microbiome assigned 129 bacterial and 37 fungal genera to known taxa.
Collapse
|
28
|
Li WM, Dita M, Rouard M, Wu W, Roux N, Xie JH, Ge XJ. Deep RNA-seq analysis reveals key responding aspects of wild banana relative resistance to Fusarium oxysporum f. sp. cubense tropical race 4. Funct Integr Genomics 2020; 20:551-62. [PMID: 32064548 DOI: 10.1007/s10142-020-00734-z] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2019] [Revised: 01/26/2020] [Accepted: 01/30/2020] [Indexed: 10/25/2022]
Abstract
Tropical race 4 of Fusarium oxysporum f. sp. cubense (FocTR4) is seriously threatening the banana industry worldwide. Resistant genotypes are present in wild relatives of banana, but little is known about the genetic and molecular mechanisms driving resistance responses. In this work, through in-depth expression analysis, we compared the responses of the resistant wild relative Musa acuminata ssp. burmanicoides (WTB) with the susceptible banana cultivar "Brizilian" (CAV, as it belongs to the Cavendish subgroup) to FocTR4 infection. Our findings showed that 1196 defense-related genes in the resistant WTB were differentially expressed genes (DEGs); only 358 defense-related DEGs were detected in CAV. DEGs related to pattern recognition receptors (PRRs) and disease resistance (R genes) were found in both genotypes, indicating the onset of both basal and specific defenses to FocTR4. Genes associated with cell wall modification exhibited a more remarkable upregulation in WTB than in CAV and might be involved in resistance during penetration steps. Our data also suggested that the high resistance of WTB is quantitatively driven with larger numbers and higher expression levels of defense-related DEGs. Fine-tuning studies to understand the resistance responses of WTB at early stages should be conducted to better support banana breeding programs. Further investigations are also required to validate the role of key genes screened in this study.
Collapse
|
29
|
Šimoníková D, Němečková A, Karafiátová M, Uwimana B, Swennen R, Doležel J, Hřibová E. Chromosome Painting Facilitates Anchoring Reference Genome Sequence to Chromosomes In Situ and Integrated Karyotyping in Banana ( Musa Spp.). Front Plant Sci 2019; 10:1503. [PMID: 31824534 DOI: 10.3389/fpls.2019.01503/full] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Received: 07/29/2019] [Accepted: 10/29/2019] [Indexed: 05/24/2023]
Abstract
Oligo painting FISH was established to identify all chromosomes in banana (Musa spp.) and to anchor pseudomolecules of reference genome sequence of Musa acuminata spp. malaccensis "DH Pahang" to individual chromosomes in situ. A total of 19 chromosome/chromosome-arm specific oligo painting probes were developed and were shown to be suitable for molecular cytogenetic studies in genus Musa. For the first time, molecular karyotypes of diploid M. acuminata spp. malaccensis (A genome), M. balbisiana (B genome), and M. schizocarpa (S genome) from the Eumusa section of Musa, which contributed to the evolution of edible banana cultivars, were established. This was achieved after a combined use of oligo painting probes and a set of previously developed banana cytogenetic markers. The density of oligo painting probes was sufficient to study chromosomal rearrangements on mitotic as well as on meiotic pachytene chromosomes. This advance will enable comparative FISH mapping and identification of chromosomal translocations which accompanied genome evolution and speciation in the family Musaceae.
Collapse
Affiliation(s)
- Denisa Šimoníková
- Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region Hana for Biotechnological and Agricultural Research, Olomouc, Czechia
| | - Alžbeěta Němečková
- Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region Hana for Biotechnological and Agricultural Research, Olomouc, Czechia
| | - Miroslava Karafiátová
- Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region Hana for Biotechnological and Agricultural Research, Olomouc, Czechia
| | - Brigitte Uwimana
- Banana Breeding, International Institute of Tropical Agriculture, Kampala, Uganda
| | - Rony Swennen
- Bioversity International, Banana Genetic Resources, Heverlee, Belgium
- Division of Crop Biotechnics, Laboratory of Tropical Crop Improvement, Katholieke Universiteit Leuven, Leuven, Belgium
- Banana Breeding, International Institute of Tropical Agriculture, Arusha, Tanzania
| | - Jaroslav Doležel
- Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region Hana for Biotechnological and Agricultural Research, Olomouc, Czechia
| | - Eva Hřibová
- Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region Hana for Biotechnological and Agricultural Research, Olomouc, Czechia
| |
Collapse
|
30
|
Shekhar S, Rustagi A, Kumar D, Yusuf MA, Sarin NB, Lawrence K. Groundnut AhcAPX conferred abiotic stress tolerance in transgenic banana through modulation of the ascorbate-glutathione pathway. Physiol Mol Biol Plants 2019; 25:1349-1366. [PMID: 31736539 PMCID: PMC6825100 DOI: 10.1007/s12298-019-00704-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/22/2019] [Revised: 07/06/2019] [Accepted: 08/19/2019] [Indexed: 05/08/2023]
Abstract
A stress inducible cytosolic ascorbate peroxidase gene (AhcAPX) was ectopically expressed in banana (cv. Grand naine) plants to strengthen their antioxidant capacity. High level of AhcAPX gene transcripts and enzyme suggested constitutive and functional expression of candidate gene in transgenic (TR) plants. The tolerance level of in vitro and in vivo grown TR banana plantlets were assessed against salt and drought stress. The TR banana plants conferred tolerance against the abiotic stresses by maintaining a high redox state of ascorbate and glutathione, which correlated with lower accumulation of H2O2, O2 ⋅- and higher level of antioxidant enzyme (SOD, APX, CAT, GR, DHAR and MDHAR) activities. The efficacy of AhcAPX over-expression was also investigated in terms of different physiochemical attributes of TR and untransformed control plants, such as, proline content, membrane stability, electrolyte leakage and chlorophyll retention. The TR plants showed higher photochemical efficiency of PSII (Fv/Fm), and stomatal attributes under photosynthesis generated reactive oxygen species (ROS) stress. The outcome of present investigation suggest that ectopic expression of AhcAPX gene in banana enhances the tolerance to drought and salt stress by annulling the damage caused by ROS.
Collapse
Affiliation(s)
- Shashi Shekhar
- Department of Biochemistry and Biochemical Engineering, Jacob School of Biotechnology and Bioengineering, Sam Higginbottom University of Agriculture Technology and Sciences, Allahabad, 211007 India
- School of Life Sciences, Jawaharlal Nehru University, New Delhi, 110067 India
| | - Anjana Rustagi
- Department of Botany, Gargi College, University of Delhi, New Delhi, 110049 India
| | - Deepak Kumar
- Department of Botany, Central University of Jammu, Jammu, 180011 India
| | - Mohd. Aslam Yusuf
- Department of Bioengineering, Integral University, Lucknow, Uttar Pradesh 226026 India
| | - Neera Bhalla Sarin
- School of Life Sciences, Jawaharlal Nehru University, New Delhi, 110067 India
| | - Kapil Lawrence
- Department of Biochemistry and Biochemical Engineering, Jacob School of Biotechnology and Bioengineering, Sam Higginbottom University of Agriculture Technology and Sciences, Allahabad, 211007 India
| |
Collapse
|
31
|
Lokesh V, Manjunatha G, Hegde NS, Bulle M, Puthusseri B, Gupta KJ, Neelwarne B. Polyamine Induction in Postharvest Banana Fruits in Response to NO Donor SNP Occurs via l-Arginine Mediated Pathway and Not via Competitive Diversion of S-Adenosyl-l-Methionine. Antioxidants (Basel) 2019; 8:antiox8090358. [PMID: 31480617 PMCID: PMC6769871 DOI: 10.3390/antiox8090358] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2019] [Revised: 08/10/2019] [Accepted: 08/22/2019] [Indexed: 01/02/2023] Open
Abstract
Nitric oxide (NO) is known to antagonize ethylene by various mechanisms; one of such mechanisms is reducing ethylene levels by competitive action on S-adenosyl-L-methionine (SAM)—a common precursor for both ethylene and polyamines (PAs) biosynthesis. In order to investigate whether this mechanism of SAM pool diversion by NO occur towards PAs biosynthesis in banana, we studied the effect of NO on alterations in the levels of PAs, which in turn modulate ethylene levels during ripening. In response to NO donor sodium nitroprusside (SNP) treatment, all three major PAs viz. putrescine, spermidine and spermine were induced in control as well as ethylene pre-treated banana fruits. However, the gene expression studies in two popular banana varieties of diverse genomes, Nanjanagudu rasabale (NR; AAB genome) and Cavendish (CAV; AAA genome) revealed the downregulation of SAM decarboxylase, an intermediate gene involved in ethylene and PA pathway after the fifth day of NO donor SNP treatment, suggesting that ethylene and PA pathways do not compete for SAM. Interestingly, arginine decarboxylase belonging to arginine-mediated route of PA biosynthesis was upregulated several folds in response to the SNP treatment. These observations revealed that NO induces PAs via l-arginine-mediated route and not via diversion of SAM pool.
Collapse
Affiliation(s)
- Veeresh Lokesh
- Plant Cell Biotechnology Department, Council of Scientific and Industrial Research-Central Food Technological Research Institute, Mysore 570020, India
| | - Girigowda Manjunatha
- Plant Cell Biotechnology Department, Council of Scientific and Industrial Research-Central Food Technological Research Institute, Mysore 570020, India
| | - Namratha S Hegde
- Plant Cell Biotechnology Department, Council of Scientific and Industrial Research-Central Food Technological Research Institute, Mysore 570020, India
| | - Mallesham Bulle
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi 110067, India
| | - Bijesh Puthusseri
- Plant Cell Biotechnology Department, Council of Scientific and Industrial Research-Central Food Technological Research Institute, Mysore 570020, India
| | | | - Bhagyalakshmi Neelwarne
- Plant Cell Biotechnology Department, Council of Scientific and Industrial Research-Central Food Technological Research Institute, Mysore 570020, India.
| |
Collapse
|
32
|
Luambano ND, Kashando BE, Masunga MM, Mwenisongole AE, Mziray MF, Mbaga JE, Polini RM, Mgonja DM. Status of Pratylenchus coffeae in banana-growing areas of Tanzania. Physiol Mol Plant Pathol 2019; 105:102-109. [PMID: 31007378 PMCID: PMC6472606 DOI: 10.1016/j.pmpp.2018.08.002] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/26/2018] [Revised: 08/03/2018] [Accepted: 08/08/2018] [Indexed: 06/09/2023]
Abstract
Pratylenchus coffeae is among the plant parasitic nematodes contributing to yield losses of banana. To determine the status of P. coffeae, a survey was conducted in banana-growing regions of Tanzania and samples collected. The results indicated that in 2015 there was an increase in total counts of P. coffeae extracted from roots compared to that reported in 1999 in Unguja West, North and South. Moreover, we noted its presence for the first time in mainland Tanzania. Generally, the densities of P. coffeae were high on banana roots collected at 500-1000 m above sea level. This information on the status of P. coffeae is important in planning management of nematodes in Tanzania.
Collapse
Affiliation(s)
- Nessie D. Luambano
- Sugarcane Research Institute-Kibaha, P. O. Box 30031, Kibaha Coast, Tanzania
| | | | - Minza M. Masunga
- Sugarcane Research Institute-Kibaha, P. O. Box 30031, Kibaha Coast, Tanzania
| | | | - Magreth F. Mziray
- Sugarcane Research Institute-Kibaha, P. O. Box 30031, Kibaha Coast, Tanzania
| | - Jeremiah E. Mbaga
- Sugarcane Research Institute-Kibaha, P. O. Box 30031, Kibaha Coast, Tanzania
| | - Renifrida M. Polini
- Sugarcane Research Institute-Kibaha, P. O. Box 30031, Kibaha Coast, Tanzania
| | - Doreen M. Mgonja
- Mikocheni Agricultural Research Institute, P. O. Box 6226, Dar es Salaam, Tanzania
| |
Collapse
|
33
|
Šimoníková D, Němečková A, Karafiátová M, Uwimana B, Swennen R, Doležel J, Hřibová E. Chromosome Painting Facilitates Anchoring Reference Genome Sequence to Chromosomes In Situ and Integrated Karyotyping in Banana ( Musa Spp.). Front Plant Sci 2019; 10:1503. [PMID: 31824534 PMCID: PMC6879668 DOI: 10.3389/fpls.2019.01503] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/29/2019] [Accepted: 10/29/2019] [Indexed: 05/04/2023]
Abstract
Oligo painting FISH was established to identify all chromosomes in banana (Musa spp.) and to anchor pseudomolecules of reference genome sequence of Musa acuminata spp. malaccensis "DH Pahang" to individual chromosomes in situ. A total of 19 chromosome/chromosome-arm specific oligo painting probes were developed and were shown to be suitable for molecular cytogenetic studies in genus Musa. For the first time, molecular karyotypes of diploid M. acuminata spp. malaccensis (A genome), M. balbisiana (B genome), and M. schizocarpa (S genome) from the Eumusa section of Musa, which contributed to the evolution of edible banana cultivars, were established. This was achieved after a combined use of oligo painting probes and a set of previously developed banana cytogenetic markers. The density of oligo painting probes was sufficient to study chromosomal rearrangements on mitotic as well as on meiotic pachytene chromosomes. This advance will enable comparative FISH mapping and identification of chromosomal translocations which accompanied genome evolution and speciation in the family Musaceae.
Collapse
Affiliation(s)
- Denisa Šimoníková
- Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region Hana for Biotechnological and Agricultural Research, Olomouc, Czechia
| | - Alžbeěta Němečková
- Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region Hana for Biotechnological and Agricultural Research, Olomouc, Czechia
| | - Miroslava Karafiátová
- Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region Hana for Biotechnological and Agricultural Research, Olomouc, Czechia
| | - Brigitte Uwimana
- Banana Breeding, International Institute of Tropical Agriculture, Kampala, Uganda
| | - Rony Swennen
- Bioversity International, Banana Genetic Resources, Heverlee, Belgium
- Division of Crop Biotechnics, Laboratory of Tropical Crop Improvement, Katholieke Universiteit Leuven, Leuven, Belgium
- Banana Breeding, International Institute of Tropical Agriculture, Arusha, Tanzania
| | - Jaroslav Doležel
- Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region Hana for Biotechnological and Agricultural Research, Olomouc, Czechia
| | - Eva Hřibová
- Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region Hana for Biotechnological and Agricultural Research, Olomouc, Czechia
- *Correspondence: Eva Hřibová,
| |
Collapse
|
34
|
Cevallos‐Cevallos JM, Jines C, Maridueña‐Zavala MG, Molina‐Miranda MJ, Ochoa DE, Flores‐Cedeno JA. GC-MS metabolite profiling for specific detection of dwarf somaclonal variation in banana plants. Appl Plant Sci 2018; 6:e01194. [PMID: 30473940 PMCID: PMC6240455 DOI: 10.1002/aps3.1194] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2018] [Accepted: 09/28/2018] [Indexed: 05/16/2023]
Abstract
PREMISE OF THE STUDY The production of banana (Musa spp.; Musaceae) plants is affected by various types of somaclonal variations (SV), including dwarfism. However, methods for specific detection of SV are still scarce. To overcome this, a metabolite-based method for detection of dwarf variants was evaluated. METHODS The gas chromatography-mass spectrometry (GC-MS) metabolite profile of dwarf banana variants was investigated and compared to that of normal-healthy (N) and cucumber mosaic virus (CMV)-infected plants using principal components analysis and partial least squares discriminant analysis (PLS-DA). RESULTS Significant differences among the sample groups were observed in 82 metabolites. Rhamnose was exclusively present in dwarf plants but allothreonine and trehalose were present in all but SV samples. Cellobiose was only detected in N plants, while 45 other metabolites, including methyl-glucopyranoside, allopyranose, lactose, phenylalanine, and l-lysine were detected in all but CMV-infected samples. PLS-DA models were able to detect SV, CMV, and N plants with 100% accuracy and specificity. DISCUSSION The GC-MS metabolite profile can be used for the rapid, specific detection of SV at early plant production stages. This is the first metabolite-based characterization and detection of somaclonal variation in plants.
Collapse
Affiliation(s)
- Juan M. Cevallos‐Cevallos
- Centro de Investigaciones Biotecnológicas del EcuadorEscuela Superior Politécnica del Litoral, ESPOLCampus Gustavo Galindo Km 30.5 Vía Perimetral, P.O. Box 09‐01‐5863GuayaquilEcuador
- Facultad de Ciencias de la VidaEscuela Superior Politécnica del Litoral, ESPOLCampus Gustavo Galindo Km 30.5 Vía Perimetral, P.O. Box 09‐01‐5863GuayaquilEcuador
| | - Cristina Jines
- Centro de Investigaciones Biotecnológicas del EcuadorEscuela Superior Politécnica del Litoral, ESPOLCampus Gustavo Galindo Km 30.5 Vía Perimetral, P.O. Box 09‐01‐5863GuayaquilEcuador
| | - María G. Maridueña‐Zavala
- Centro de Investigaciones Biotecnológicas del EcuadorEscuela Superior Politécnica del Litoral, ESPOLCampus Gustavo Galindo Km 30.5 Vía Perimetral, P.O. Box 09‐01‐5863GuayaquilEcuador
| | - María J. Molina‐Miranda
- Centro de Investigaciones Biotecnológicas del EcuadorEscuela Superior Politécnica del Litoral, ESPOLCampus Gustavo Galindo Km 30.5 Vía Perimetral, P.O. Box 09‐01‐5863GuayaquilEcuador
| | - Daniel E. Ochoa
- Facultad de Ingeniería Eléctrica y ComputaciónEscuela Superior Politécnica del Litoral, ESPOLCampus Gustavo Galindo Km 30.5 Vía Perimetral, P.O. Box 09‐01‐5863GuayaquilEcuador
| | - José A. Flores‐Cedeno
- Centro de Investigaciones Biotecnológicas del EcuadorEscuela Superior Politécnica del Litoral, ESPOLCampus Gustavo Galindo Km 30.5 Vía Perimetral, P.O. Box 09‐01‐5863GuayaquilEcuador
- Facultad de Ciencias de la VidaEscuela Superior Politécnica del Litoral, ESPOLCampus Gustavo Galindo Km 30.5 Vía Perimetral, P.O. Box 09‐01‐5863GuayaquilEcuador
- Present address:
Facultad de FarmaciaDepartamento de Biología VegetalUniversidad de Valencia46100ValenciaSpain
| |
Collapse
|
35
|
Tak H, Negi S, Gupta A, Ganapathi TR. A stress associated NAC transcription factor MpSNAC67 from banana ( Musa x paradisiaca) is involved in regulation of chlorophyll catabolic pathway. Plant Physiol Biochem 2018; 132:61-71. [PMID: 30172854 DOI: 10.1016/j.plaphy.2018.08.020] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/06/2018] [Revised: 08/17/2018] [Accepted: 08/17/2018] [Indexed: 05/02/2023]
Abstract
Process of senescence includes multiple steps involving break-down of chlorophyll to degrade photosynthetic machinery. In this study, we showed that a stress-associated NAC transcription factor MpSNAC67 regulates senescence by promoting chlorophyll-catabolic genes. MpSNAC67 encodes a transcriptional activator and its promoter activity is restricted to vascular tissue of banana. Expression of MpSNAC67 showed positive responses to multiple abiotic stress conditions suggesting that MpSNAC67 is a stress associated NAC transcription factor. Transgenic banana lines overexpressing MpSNAC67 showed highly senesced phenotype including yellowing and de-greening of leaves similar to etiolated leaves. Transgenic leaves possessed low chlorophyll content and failed to retain normal chloroplast morphology including loss of granum thylakoid, non-uniform chloroplast membrane and increased number as well as size of plastoglobulins. In a gel shift assay MpSNAC67 could retard the mobility of chlorophyll catabolic genes such as PAO-like (Pheophorbide-a-oxygenase), HCAR-like (hydroxymethyl chlorophyll-a-reductase), NYC/NOL-like (Chlorophyll-b-reductase) as well as ORS1-like (a SenNAC). Expression of these genes were highly elevated in transgenic lines which indicate that MpSNAC67 is a positive regulator of senescence in banana and exercise its effect by regulating the expression of chlorophyll catabolic genes and ORS1.
Collapse
Affiliation(s)
- Himanshu Tak
- Plant Cell Culture Technology Section, Nuclear Agriculture and Biotechnology Division, India; Homi Bhabha National Institute, Anushakti Nagar, Mumbai 400094, India
| | - Sanjana Negi
- Plant Cell Culture Technology Section, Nuclear Agriculture and Biotechnology Division, India; Homi Bhabha National Institute, Anushakti Nagar, Mumbai 400094, India
| | - Alka Gupta
- Molecular Biology Division, Bhabha Atomic Research Centre, Trombay, Mumbai 400085, India
| | - T R Ganapathi
- Plant Cell Culture Technology Section, Nuclear Agriculture and Biotechnology Division, India; Homi Bhabha National Institute, Anushakti Nagar, Mumbai 400094, India.
| |
Collapse
|
36
|
Němečková A, Christelová P, Čížková J, Nyine M, Van den houwe I, Svačina R, Uwimana B, Swennen R, Doležel J, Hřibová E. Molecular and Cytogenetic Study of East African Highland Banana. Front Plant Sci 2018; 9:1371. [PMID: 30337933 PMCID: PMC6180188 DOI: 10.3389/fpls.2018.01371] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/15/2017] [Accepted: 08/29/2018] [Indexed: 05/20/2023]
Abstract
East African highland bananas (EAHBs) are staple food crop in Uganda, Tanzania, Burundi, and other countries in the African Great Lakes region. Even though several morphologically different types exist, all EAHBs are triploid and display minimal genetic variation. To provide more insights into the genetic variation within EAHBs, genotyping using simple sequence repeat (SSR) markers, molecular analysis of ITS1-5.8S-ITS2 region of ribosomal DNA locus, and the analysis of chromosomal distribution of ribosomal DNA sequences were done. A total of 38 triploid EAHB accessions available in the Musa germplasm collection (International Transit Centre, Leuven, Belgium) were characterized. Six diploid accessions of Musa acuminata ssp. zebrina, ssp. banksii, and ssp. malaccensis representing putative parents of EAHBs were included in the study. Flow cytometric estimation of 2C nuclear DNA content revealed small differences (max ~6.5%) in genome size among the EAHB clones. While no differences in the number of 45S and 5S rDNA loci were found, genotyping using 19 SSR markers resulted in grouping the EAHB accessions into four clusters. The DNA sequence analysis of the internal transcribed spacer region indicated a relation of EAHB clones with M. acuminata and, surprisingly, also with M. schizocarpa. The results suggest that EAHB cultivars originated from a single hybrid clone with M. acuminata ssp. zebrina and ssp. banksii being its most probable parents. However, M. schizocarpa seems to have contributed to the formation of this group of banana.
Collapse
Affiliation(s)
- Alžběta Němečková
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czechia
| | - Pavla Christelová
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czechia
| | - Jana Čížková
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czechia
| | - Moses Nyine
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czechia
- International Institute of Tropical Agriculture, Banana Breeding, Kampala, Uganda
| | | | - Radim Svačina
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czechia
| | - Brigitte Uwimana
- International Institute of Tropical Agriculture, Banana Breeding, Kampala, Uganda
| | - Rony Swennen
- Bioversity International, Banana Genetic Resources, Heverlee, Belgium
- Division of Crop Biotechnics, Laboratory of Tropical Crop Improvement, Katholieke Universiteit Leuven, Leuven, Belgium
- International Institute of Tropical Agriculture, Banana Breeding, Arusha, Tanzania
| | - Jaroslav Doležel
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czechia
| | - Eva Hřibová
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czechia
| |
Collapse
|
37
|
Němečková A, Christelová P, Čížková J, Nyine M, Van den Houwe I, Svačina R, Uwimana B, Swennen R, Doležel J, Hřibová E. Molecular and Cytogenetic Study of East African Highland Banana. Front Plant Sci 2018; 9:1371. [PMID: 30337933 DOI: 10.3389/fpls.2018.01371/full] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Received: 12/15/2017] [Accepted: 08/29/2018] [Indexed: 05/24/2023]
Abstract
East African highland bananas (EAHBs) are staple food crop in Uganda, Tanzania, Burundi, and other countries in the African Great Lakes region. Even though several morphologically different types exist, all EAHBs are triploid and display minimal genetic variation. To provide more insights into the genetic variation within EAHBs, genotyping using simple sequence repeat (SSR) markers, molecular analysis of ITS1-5.8S-ITS2 region of ribosomal DNA locus, and the analysis of chromosomal distribution of ribosomal DNA sequences were done. A total of 38 triploid EAHB accessions available in the Musa germplasm collection (International Transit Centre, Leuven, Belgium) were characterized. Six diploid accessions of Musa acuminata ssp. zebrina, ssp. banksii, and ssp. malaccensis representing putative parents of EAHBs were included in the study. Flow cytometric estimation of 2C nuclear DNA content revealed small differences (max ~6.5%) in genome size among the EAHB clones. While no differences in the number of 45S and 5S rDNA loci were found, genotyping using 19 SSR markers resulted in grouping the EAHB accessions into four clusters. The DNA sequence analysis of the internal transcribed spacer region indicated a relation of EAHB clones with M. acuminata and, surprisingly, also with M. schizocarpa. The results suggest that EAHB cultivars originated from a single hybrid clone with M. acuminata ssp. zebrina and ssp. banksii being its most probable parents. However, M. schizocarpa seems to have contributed to the formation of this group of banana.
Collapse
Affiliation(s)
- Alžběta Němečková
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czechia
| | - Pavla Christelová
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czechia
| | - Jana Čížková
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czechia
| | - Moses Nyine
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czechia
- International Institute of Tropical Agriculture, Banana Breeding, Kampala, Uganda
| | | | - Radim Svačina
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czechia
| | - Brigitte Uwimana
- International Institute of Tropical Agriculture, Banana Breeding, Kampala, Uganda
| | - Rony Swennen
- Bioversity International, Banana Genetic Resources, Heverlee, Belgium
- Division of Crop Biotechnics, Laboratory of Tropical Crop Improvement, Katholieke Universiteit Leuven, Leuven, Belgium
- International Institute of Tropical Agriculture, Banana Breeding, Arusha, Tanzania
| | - Jaroslav Doležel
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czechia
| | - Eva Hřibová
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czechia
| |
Collapse
|
38
|
Wu W, Ng WL, Yang JX, Li WM, Ge XJ. High cryptic species diversity is revealed by genome-wide polymorphisms in a wild relative of banana, Musa itinerans, and implications for its conservation in subtropical China. BMC Plant Biol 2018; 18:194. [PMID: 30217175 PMCID: PMC6137913 DOI: 10.1186/s12870-018-1410-6] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/18/2017] [Accepted: 08/31/2018] [Indexed: 06/08/2023]
Abstract
BACKGROUND Species delimitation is a challenging but essential task in conservation biology. Morphologically similar species are sometimes difficult to recognize even after examination by experienced taxonomists. With the advent of molecular approaches in species delimitation, this hidden diversity has received much recent attention. In addition to DNA barcoding approaches, analytical tools based on the multi-species coalescence model (MSC) have been developed for species delimitation. Musa itinerans is widely distributed in subtropical Asia, and at least six varieties have been documented. However, the number of evolutionarily distinct lineages remains unknown. RESULTS Using genome resequencing data of five populations (making up four varieties), we examined genome-wide variation and found four varieties that were evolutionary significant units. A Bayesian Phylogenetics and Phylogeography (BP&P) analysis using 123 single copy nuclear genes support three speciation events of M. itinerans varieties with robust posterior speciation probabilities; However, a Bayes factor delimitation of species with genomic data (BFD*) analysis using 1201 unlinked single nucleotide polymorphisms gave decisive support for a five-lineage model. When reconciling divergence time estimates with a speciation time scale, a modified three-lineage model was consistent with that of BP&P, in which the speciation time of two varieties (M. itinerans var. itinerans and M. itinerans var. lechangensis) were dated to 26.2 kya and 10.7 kya, respectively. In contrast, other two varieties (M. itinerans var. chinensis and M. itinerans var. guangdongensis) diverged only 3.8 kya in the Anthropocene; this may be a consequence of genetic drift rather than a speciation event. CONCLUSION Our results showed that the M. itinerans species complex harbours high cryptic species diversity. We recommend that M. itinerans var. itinerans and M. itinerans var. lechangensis be elevated to subspecies status, and the extremely rare latter subspecies be given priority for conservation. We also recommend that the very recently diverged M. itinerans var. chinensis and M. itinerans var. guangdongensis should be merged under the subspecies M. itinerans var. chinensis. Finally, we speculate that species delimitation of recently diverged lineages may be more effective using genome-wide bi-allelic SNP markers with BFD* than by using unlinked loci and BP&P.
Collapse
Affiliation(s)
- Wei Wu
- State Key Laboratory of Biocontrol, Sun Yat-sen University, Guangzhou, 510275 China
| | - Wei-Lun Ng
- State Key Laboratory of Biocontrol, Sun Yat-sen University, Guangzhou, 510275 China
| | - Jun-Xin Yang
- Center for Environmental Remediation, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing, 100101 China
| | - Wei-Ming Li
- Key Laboratory of Tropical Fruit Biology, Ministry of Agriculture, South Subtropical Crops Research Institute, Chinese Academy of Tropical Agricultural Sciences, Zhanjiang, 524091 China
| | - Xue-Jun Ge
- Key Laboratory of Plant Resources Conservation and Sustainable Utilization, South China Botanical Garden, the Chinese Academy of Sciences, Guangzhou, 510650 China
| |
Collapse
|
39
|
Negi S, Tak H, Ganapathi TR. A banana NAC transcription factor ( MusaSNAC1) impart drought tolerance by modulating stomatal closure and H 2O 2 content. Plant Mol Biol 2018; 96:457-471. [PMID: 29470695 DOI: 10.1007/s11103-018-0710-4] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/08/2017] [Accepted: 02/17/2018] [Indexed: 05/28/2023]
Abstract
MusaSNAC1 function in H2O2 mediated stomatal closure and promote drought tolerance by directly binding to CGT[A/G] motif in regulatory region of multiple stress-related genes. Drought is a abiotic stress-condition, causing reduced plant growth and diminished crop yield. Guard cells of the stomata control photosynthesis and transpiration by regulating CO2 exchange and water loss, thus affecting growth and crop yield. Roles of NAC (NAM, ATAF1/2 and CUC2) protein in regulation of stress-conditions has been well documented however, their control over stomatal aperture is largely unknown. In this study we report a banana NAC protein, MusaSNAC1 which induced stomatal closure by elevating H2O2 content in guard cells during drought stress. Overexpression of MusaSNAC1 in banana resulted in higher number of stomata closure causing reduced water loss and thus elevated drought-tolerance. During drought, expression of GUS (β-glucuronidase) under P MusaSNAC1 was remarkably elevated in guard cells of stomata which correlated with its function as a transcription factor regulating stomatal aperture closing. MusaSNAC1 is a transcriptional activator belonging to SNAC subgroup and its 5'-upstream region contain multiple Dof1 elements as well as stress-associated cis-elements. Moreover, MusaSNAC1 also regulate multiple stress-related genes by binding to core site of NAC-proteins CGT[A/G] in their 5'-upstream region. Results indicated an interesting mechanism of drought tolerance through stomatal closure by H2O2 generation in guard cells, regulated by a NAC-protein in banana.
Collapse
Affiliation(s)
- Sanjana Negi
- Plant Cell Culture Technology Section, Nuclear Agriculture and Biotechnology Division, Bhabha Atomic Research Centre, Trombay, Mumbai, 400085, India
- Homi Bhabha National Institute, AnushaktiNagar, Mumbai, 400094, India
| | - Himanshu Tak
- Plant Cell Culture Technology Section, Nuclear Agriculture and Biotechnology Division, Bhabha Atomic Research Centre, Trombay, Mumbai, 400085, India
- Homi Bhabha National Institute, AnushaktiNagar, Mumbai, 400094, India
| | - T R Ganapathi
- Plant Cell Culture Technology Section, Nuclear Agriculture and Biotechnology Division, Bhabha Atomic Research Centre, Trombay, Mumbai, 400085, India.
| |
Collapse
|
40
|
Negi S, Tak H, Ganapathi TR. Native vascular related NAC transcription factors are efficient regulator of multiple classes of secondary wall associated genes in banana. Plant Sci 2017; 265:70-86. [PMID: 29223344 DOI: 10.1016/j.plantsci.2017.09.018] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/27/2017] [Revised: 09/18/2017] [Accepted: 09/21/2017] [Indexed: 06/07/2023]
Abstract
Secondary-wall deposition in xylem vessel elements is regulated by vascular-related NAC transcription factors (VNDs). We show that three banana VNDs (MusaVND1, MusaVND2 and MusaVND3) directly regulate multiple secondary-wall associated genes by binding to their 5'-upstream regulatory region. Transgenic banana harboring either PMusaVND1:GUS, PMusaVND2:GUS or PMusaVND3:GUS showed specific GUS staining in lignified tissues. MusaVND1, MusaVND2 and MusaVND3 encodes transcriptional-activators as its C-terminal region drive expression of reporter genes in vivo in yeast. Purified MusaVND1, MusaVND2 and MusaVND3 proteins in gel shift assay bind to 19-bp secondary-wall NAC binding element (SNBE) while it fails to bind mutated SNBE. Putative SNBE sites in the 5'-upstream regulatory region of important secondary-wall associated genes related to programmed cell death (XCP1), cell-wall modification (IRX1/CesA8, IRX3/CesA7,IRX5/CesA4, IRX8, IRX10 and IRX12) and transcriptional regulation (MYB52, MYB48/59, MYB85, MYB58/72, MYB46, and MYB83) in banana was identified and mobility of these regulatory regions got retarded by MusaVND1, MusaVND2 and MusaVND3. Transcript level of these important secondary wall associated genes were elevated in transgenic banana overexpressing either MusaVND1, MusaVND2 or MusaVND3. Present study suggested promoters with prospective utilization in wall modification in banana (a potential biofuel crop) and suggest a complex transcriptional regulation of secondary wall deposition in plants.
Collapse
Affiliation(s)
- Sanjana Negi
- Plant Cell Culture Technology Section, Nuclear Agriculture and Biotechnology Division, Bhabha Atomic Research Centre, Trombay, Mumbai 400085, India; Homi Bhabha National Institute, Anushakti Nagar, Mumbai 400094, India
| | - Himanshu Tak
- Plant Cell Culture Technology Section, Nuclear Agriculture and Biotechnology Division, Bhabha Atomic Research Centre, Trombay, Mumbai 400085, India; Homi Bhabha National Institute, Anushakti Nagar, Mumbai 400094, India
| | - T R Ganapathi
- Plant Cell Culture Technology Section, Nuclear Agriculture and Biotechnology Division, Bhabha Atomic Research Centre, Trombay, Mumbai 400085, India.
| |
Collapse
|
41
|
Martin G, Carreel F, Coriton O, Hervouet C, Cardi C, Derouault P, Roques D, Salmon F, Rouard M, Sardos J, Labadie K, Baurens FC, D'Hont A. Evolution of the Banana Genome ( Musa acuminata) Is Impacted by Large Chromosomal Translocations. Mol Biol Evol 2017; 34:2140-2152. [PMID: 28575404 PMCID: PMC5850475 DOI: 10.1093/molbev/msx164] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022] Open
Abstract
Most banana cultivars are triploid seedless parthenocarpic clones derived from hybridization between Musa acuminata subspecies and sometimes M. balbisiana. M. acuminata subspecies were suggested to differ by a few large chromosomal rearrangements based on chromosome pairing configurations in intersubspecies hybrids. We searched for large chromosomal rearrangements in a seedy M. acuminata ssp. malaccensis banana accession through mate-pair sequencing, BAC-FISH, targeted PCR and marker (DArTseq) segregation in its progeny. We identified a heterozygous reciprocal translocation involving two distal 3 and 10 Mb segments from chromosomes 01 and 04, respectively, and showed that it generated high segregation distortion, reduced recombination and linkage between chromosomes 01 and 04 in its progeny. The two chromosome structures were found to be mutually exclusive in gametes and the rearranged structure was preferentially transmitted to the progeny. The rearranged chromosome structure was frequently found in triploid cultivars but present only in wild malaccensis ssp. accessions, thus suggesting that this rearrangement occurred in M. acuminata ssp. malaccensis. We propose a mechanism for the spread of this rearrangement in Musa diversity and suggest that this rearrangement could have played a role in the emergence of triploid cultivars.
Collapse
Affiliation(s)
| | | | | | | | | | | | | | | | | | | | - Karine Labadie
- Commissariat à l'Energie Atomique (CEA), Institut Genomique (IG), Genoscope, Evry, France
| | | | | |
Collapse
|
42
|
Nouroz F, Noreen S, Ahmad H, Heslop-Harrison JSP. The landscape and structural diversity of LTR retrotransposons in Musa genome. Mol Genet Genomics 2017; 292:1051-67. [PMID: 28601922 DOI: 10.1007/s00438-017-1333-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2016] [Accepted: 06/07/2017] [Indexed: 10/19/2022]
Abstract
Long terminal repeat retrotransposons represent a major component of plant genomes and act as drivers of genome evolution and diversity. Musa is an important fruit crop and also used as a starchy vegetable in many countries. BAC sequence analysis by dot plot was employed to investigate the LTR retrotransposons from Musa genomes. Fifty intact LTR retrotransposons from selected Musa BACs were identified by dot plot analysis and further BLASTN searches retrieved 153 intact copies, 61 truncated, and a great number of partial copies/remnants from GenBank database. LARD-like elements were also identified with several copies dispersed among the Musa genotypes. The predominant elements were the LTR retrotransposons Copia and Gypsy, while Caulimoviridae (pararetrovirus) were rare in the Musa genome. PCR amplification of reverse transcriptase (RT) sequences revealed their abundance in almost all tested Musa accessions and their ancient nature before the divergence of Musa species. The phylogenetic analysis based on RT sequences of Musa and other retrotransposons clustered them into Gypsy, Caulimoviridae, and Copia lineages. Most of the Musa-related elements clustered in their respective groups, while some grouped with other elements indicating homologous sequences. The present work will be helpful to understand the LTR retrotransposons landscape, giving a complete picture of the nature of the elements, their structural features, annotation, and evolutionary dynamics in the Musa genome.
Collapse
|
43
|
Janssens SB, Vandelook F, De Langhe E, Verstraete B, Smets E, Vandenhouwe I, Swennen R. Evolutionary dynamics and biogeography of Musaceae reveal a correlation between the diversification of the banana family and the geological and climatic history of Southeast Asia. New Phytol 2016; 210:1453-65. [PMID: 26832306 PMCID: PMC5066818 DOI: 10.1111/nph.13856] [Citation(s) in RCA: 35] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/03/2015] [Accepted: 12/07/2015] [Indexed: 05/20/2023]
Abstract
Tropical Southeast Asia, which harbors most of the Musaceae biodiversity, is one of the most species-rich regions in the world. Its high degree of endemism is shaped by the region's tectonic and climatic history, with large differences between northern Indo-Burma and the Malayan Archipelago. Here, we aim to find a link between the diversification and biogeography of Musaceae and geological history of the Southeast Asian subcontinent. The Musaceae family (including five Ensete, 45 Musa and one Musella species) was dated using a large phylogenetic framework encompassing 163 species from all Zingiberales families. Evolutionary patterns within Musaceae were inferred using ancestral area reconstruction and diversification rate analyses. All three Musaceae genera - Ensete, Musa and Musella - originated in northern Indo-Burma during the early Eocene. Musa species dispersed from 'northwest to southeast' into Southeast Asia with only few back-dispersals towards northern Indo-Burma. Musaceae colonization events of the Malayan Archipelago subcontinent are clearly linked to the geological and climatic history of the region. Musa species were only able to colonize the region east of Wallace's line after the availability of emergent land from the late Miocene onwards.
Collapse
Affiliation(s)
| | | | - Edmond De Langhe
- Laboratory of Tropical Crop ImprovementWillem de Croylaan 42LeuvenBE‐3001Belgium
| | | | - Erik Smets
- Plant Conservation and Population BiologyKU LeuvenKasteelpark Arenberg 31PO Box 2435LeuvenBE‐3001Belgium
- Naturalis Biodiversity CenterLeiden UniversityPO Box 9517Leiden2300RAthe Netherlands
| | - Ines Vandenhouwe
- Bioversity InternationalWillem De Croylaan 42LeuvenBE‐3001Belgium
| | - Rony Swennen
- Laboratory of Tropical Crop ImprovementWillem de Croylaan 42LeuvenBE‐3001Belgium
- Bioversity InternationalWillem De Croylaan 42LeuvenBE‐3001Belgium
- International Institute of Tropical AgriculturePO Box 10, DulutiArushaTanzania
| |
Collapse
|
44
|
Buah S, Mlalazi B, Khanna H, Dale JL, Mortimer CL. The Quest for Golden Bananas: Investigating Carotenoid Regulation in a Fe'i Group Musa Cultivar. J Agric Food Chem 2016; 64:3176-85. [PMID: 27041343 DOI: 10.1021/acs.jafc.5b05740] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/12/2023]
Abstract
The regulation of carotenoid biosynthesis in a high-carotenoid-accumulating Fe'i group Musa cultivar, "Asupina", has been examined and compared to that of a low-carotenoid-accumulating cultivar, "Cavendish", to understand the molecular basis underlying carotenogenesis during banana fruit development. Comparisons in the accumulation of carotenoid species, expression of isoprenoid genes, and product sequestration are reported. Key differences between the cultivars include greater carotenoid cleavage dioxygenase 4 (CCD4) expression in "Cavendish" and the conversion of amyloplasts to chromoplasts during fruit ripening in "Asupina". Chromoplast development coincided with a reduction in dry matter content and fruit firmness. Chromoplasts were not observed in "Cavendish" fruits. Such information should provide important insights for future developments in the biofortification and breeding of banana.
Collapse
Affiliation(s)
- Stephen Buah
- Centre for Tropical Crops and Biocommodities, Queensland University of Technology , 2 George Street, Brisbane, Queensland 4001, Australia
| | - Bulukani Mlalazi
- Centre for Tropical Crops and Biocommodities, Queensland University of Technology , 2 George Street, Brisbane, Queensland 4001, Australia
| | - Harjeet Khanna
- Centre for Tropical Crops and Biocommodities, Queensland University of Technology , 2 George Street, Brisbane, Queensland 4001, Australia
| | - James L Dale
- Centre for Tropical Crops and Biocommodities, Queensland University of Technology , 2 George Street, Brisbane, Queensland 4001, Australia
| | - Cara L Mortimer
- Centre for Tropical Crops and Biocommodities, Queensland University of Technology , 2 George Street, Brisbane, Queensland 4001, Australia
| |
Collapse
|
45
|
Hidalgo W, Chandran JN, Menezes RC, Otálvaro F, Schneider B. Phenylphenalenones protect banana plants from infection by Mycosphaerella fijiensis and are deactivated by metabolic conversion. Plant Cell Environ 2016; 39:492-513. [PMID: 26290378 PMCID: PMC6220935 DOI: 10.1111/pce.12630] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/19/2015] [Revised: 08/12/2015] [Accepted: 08/13/2015] [Indexed: 05/03/2023]
Abstract
Phenylphenalenones, polycyclic aromatic natural products from some monocotyledonous plants, are known as phytoalexins in banana (Musa spp.). In this study, (1) H nuclear magnetic resonance (NMR)-based metabolomics along with liquid chromatography and mass spectrometry were used to explore the chemical responses of the susceptible 'Williams' and the resistant 'Khai Thong Ruang' Musa varieties to the ascomycete fungus Mycosphaerella fijiensis, the agent of the black leaf Sigatoka disease. Principal component analysis discriminated strongly between infected and non-infected plant tissue, mainly because of specialized metabolism induced in response to the fungus. Phenylphenalenones are among the major induced compounds, and the resistance level of the plants was correlated with the progress of the disease. However, a virulent strain of M. fijiensis was able to overcome plant resistance by converting phenylphenalenones to sulfate conjugates. Here, we report the first metabolic detoxification of fungitoxic phenylphenalenones to evade the chemical defence of Musa plants.
Collapse
Affiliation(s)
- William Hidalgo
- Max‐Planck Institut für Chemische Ökologie, Beutenberg CampusHans‐Knöll‐Strasse 8Jena07745Germany
| | - Jima N. Chandran
- Max‐Planck Institut für Chemische Ökologie, Beutenberg CampusHans‐Knöll‐Strasse 8Jena07745Germany
| | - Riya C. Menezes
- Max‐Planck Institut für Chemische Ökologie, Beutenberg CampusHans‐Knöll‐Strasse 8Jena07745Germany
| | - Felipe Otálvaro
- Instituto de QuímicaUniversidad de AntioquiaCalle 67# 53‐108MedellínA.A. 1226Colombia
| | - Bernd Schneider
- Max‐Planck Institut für Chemische Ökologie, Beutenberg CampusHans‐Knöll‐Strasse 8Jena07745Germany
| |
Collapse
|
46
|
Köberl M, Dita M, Martinuz A, Staver C, Berg G. Agroforestry leads to shifts within the gammaproteobacterial microbiome of banana plants cultivated in Central America. Front Microbiol 2015; 6:91. [PMID: 25717322 PMCID: PMC4324142 DOI: 10.3389/fmicb.2015.00091] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2014] [Accepted: 01/24/2015] [Indexed: 12/04/2022] Open
Abstract
Bananas (Musa spp.) belong to the most important global food commodities, and their cultivation represents the world's largest monoculture. Although the plant-associated microbiome has substantial influence on plant growth and health, there is a lack of knowledge of the banana microbiome and its influencing factors. We studied the impact of (i) biogeography, and (ii) agroforestry on the banana-associated gammaproteobacterial microbiome analyzing plants grown in smallholder farms in Nicaragua and Costa Rica. Profiles of 16S rRNA genes revealed high abundances of Pseudomonadales, Enterobacteriales, Xanthomonadales, and Legionellales. An extraordinary high diversity of the gammaproteobacterial microbiota was observed within the endophytic microenvironments (endorhiza and pseudostem), which was similar in both countries. Enterobacteria were identified as dominant group of above-ground plant parts (pseudostem and leaves). Neither biogeography nor agroforestry showed a statistically significant impact on the gammaproteobacterial banana microbiome in general. However, indicator species for each microenvironment and country, as well as for plants grown in Coffea intercropping systems with and without agri-silvicultural production of different Fabaceae trees (Inga spp. in Nicaragua and Erythrina poeppigiana in Costa Rica) could be identified. For example, banana plants grown in agroforestry systems were characterized by an increase of potential plant-beneficial bacteria, like Pseudomonas and Stenotrophomonas, and on the other side by a decrease of Erwinia. Hence, this study could show that as a result of legume-based agroforestry the indigenous banana-associated gammaproteobacterial community noticeably shifted.
Collapse
Affiliation(s)
- Martina Köberl
- Institute of Environmental Biotechnology, Graz University of Technology Graz, Austria
| | - Miguel Dita
- Brazilian Agricultural Research Corporation - Embrapa Brasília, Brazil ; Bioversity International Costa Rica Turrialba, Costa Rica
| | | | | | - Gabriele Berg
- Institute of Environmental Biotechnology, Graz University of Technology Graz, Austria
| |
Collapse
|
47
|
Karuppiah P, Mustaffa M. Antibacterial and antioxidant activities of Musa sp. leaf extracts against multidrug resistant clinical pathogens causing nosocomial infection. Asian Pac J Trop Biomed 2014; 3:737-42. [PMID: 23998016 DOI: 10.1016/s2221-1691(13)60148-3] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2013] [Accepted: 08/22/2013] [Indexed: 10/26/2022] Open
Abstract
OBJECTIVE To investigate different Musa sp. leave extracts of hexane, ethyl acetate and methanol were evaluated for antibacterial activity against multi-drug resistant pathogens causing nosocomial infection by agar well diffusion method and also antioxidant activities. METHODS The four different Musa species leaves were extracted with hexane, ethyl acetate and methanol. Antibacterial susceptibility test, minimum inhibitory concentration and minimum inhibitory bacterial concentration were determined by agar well diffusion method. Total phenolic content and in vitro antioxidant activity was determined. RESULTS All the Musa sp. extracts showed moderate antibacterial activities expect Musa paradisiaca with the inhibition zone ranging from 8.0 to 18.6 mm. Among four species ethyl acetate extracts of Musa paradisiaca showed highest activity against tested pathogens particularly E. coli, P. aeruginosa and Citrobacter sp. The minimum inhibitory concentrations were within the value of 15.63- 250 µg/mL and minimum bactericidal concentrations were ranging from 31.25- 250 µg/mL. Antioxidant activity of Musa acuminate exhibited maximum activity among other three Musa species. CONCLUSIONS The present study concluded that among the different Musa species, Musa paradisiaca displayed efficient antibacterial activity followed by Musa acuminata against multi-drug resistant nosocomial infection causing pathogens. Further, an extensive study is needed to identify the bioactive compounds, mode of action and toxic effect in vivo of Musa sp.
Collapse
Affiliation(s)
- Ponmurugan Karuppiah
- Addiriyah Chair for Environmental Studies, Department of Botany and Microbiology, College of Science, King Saud University, Riyadh-11541, Kingdom of Saudi Arabia.
| | | |
Collapse
|
48
|
Yockteng R, Almeida AMR, Morioka K, Alvarez-Buylla ER, Specht CD. Molecular evolution and patterns of duplication in the SEP/AGL6-like lineage of the Zingiberales: a proposed mechanism for floral diversification. Mol Biol Evol 2013; 30:2401-22. [PMID: 23938867 DOI: 10.1093/molbev/mst137] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022] Open
Abstract
The diversity of floral forms in the plant order Zingiberales has evolved through alterations in floral organ morphology. One striking alteration is the shift from fertile, filamentous stamens to sterile, laminar (petaloid) organs in the stamen whorls, attributed to specific pollination syndromes. Here, we examine the role of the SEPALLATA (SEP) genes, known to be important in regulatory networks underlying floral development and organ identity, in the evolution of development of the diverse floral organs phenotypes in the Zingiberales. Phylogenetic analyses show that the SEP-like genes have undergone several duplication events giving rise to multiple copies. Selection tests on the SEP-like genes indicate that the two copies of SEP3 have mostly evolved under balancing selection, probably due to strong functional restrictions as a result of their critical role in floral organ specification. In contrast, the two LOFSEP copies have undergone differential positive selection, indicating neofunctionalization. Reverse transcriptase-polymerase chain reaction, gene expression from RNA-seq data, and in situ hybridization analyses show that the recovered genes have differential expression patterns across the various whorls and organ types found in the Zingiberales. Our data also suggest that AGL6, sister to the SEP-like genes, may play an important role in stamen morphology in the Zingiberales. Thus, the SEP-like genes are likely to be involved in some of the unique morphogenetic patterns of floral organ development found among this diverse order of tropical monocots. This work contributes to a growing body of knowledge focused on understanding the role of gene duplications and the evolution of entire gene networks in the evolution of flower development.
Collapse
Affiliation(s)
- Roxana Yockteng
- Department of Plant and Microbial Biology, Department of Integrative Biology and the University and Jepson Herbaria, University of California, Berkeley
| | | | | | | | | |
Collapse
|
49
|
Chacón IA, Janzen DH, Hallwachs W, J Bolling Sullivan, Hajibabaei M. Cryptic species within cryptic moths: new species of Dunama Schaus (Notodontidae, Nystaleinae) in Costa Rica. Zookeys 2013:11-45. [PMID: 23730176 PMCID: PMC3668374 DOI: 10.3897/zookeys.264.4440] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2012] [Accepted: 12/27/2012] [Indexed: 11/16/2022] Open
Abstract
Based on almost 1,700 recently reared and wild-collected specimens, the genus Dunama Schaus (Notodontidae, Nystaelinae) in Costa Rica is reviewed. Eight species are recorded of which seven are newly described: Dunama jessiehillae Chacón, Dunama jessiebarronae Chacón, Dunama janewaldronae Chacón, Dunama jessiebancroftae Chacón, Dunama janecoxae Chacón, Dunama biosise Chacón, Dunama indereci Chacón. Dunama angulinea Schaus is redescribed and associated with its correct genitalia. Dunama tuna (Schaus), previously listed as ocurring in Costa Rica, is restricted to Colombia. Most species are described through their distinctive CO1 barcodes, genitalia and life histories. Dunama adults and caterpillars, their foodplants, and their parasites in Area de Conservación Guanacaste (ACG) in northwestern Costa Rica are described where known. Many life history stages are illustrated.
Collapse
Affiliation(s)
- Isidro A Chacón
- Instituto Nacional de Biodiversidad (INBio), Apdo. 22-3100, Sto. Domingo, Heredia, Costa Rica
| | | | | | | | | |
Collapse
|
50
|
Cofcewicz ET, Carneiro RMDG, Randig O, Chabrier C, Quénéhervé P. Diversity of Meloidogyne spp. on Musa in Martinique, Guadeloupe, and French Guiana. J Nematol 2005; 37:313-322. [PMID: 19262879 PMCID: PMC2620976] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/27/2023] Open
Abstract
Ninety-six isolates of Meloidogyne species collected from banana fields from Martinique, Guadeloupe, and French Guiana, were examined using esterase (Est) and malate dehydrogenase (Mdh) phenotypes. Adult females identified as M. arenaria, M. incognita, M. javanica, M. cruciani, M. hispanica, and Meloidogyne sp. showed species-specific phenotypes only for the esterase enzymes. Intraspecific variability among isolates of M. arenaria, M. incognita, and M. javanica was detected using Est and Mdh. Perineal patterns were used as a complementary tool together with enzyme characterization and were essential for checking the morphological consistency of the identification. The major species of M. arenaria and M. incognita were detected at 61.9% and 34.3% of the total number of isolates, respectively, and the other minor species at 3.8%. The mixed Meloidogyne species were detected in 45.1% of the samples. Genetic analysis was conducted using RAPD markers, which alone or in combination provided reliable polymorphisms both between and within species. RAPD analysis of the data resulted in clustering of species and isolates congruent with esterase phenotype characterization. The intraspecific variability in M. incognita and in M. arenaria represented 14.9% and 61.6% of the amplified polymorphic fragments, respectively. This high level of variation in M. arenaria isolates may indicate multiple origins for populations classified as M. arenaria or more than one species inside the same group, but more detailed morphological and DNA studies will be necessary to test this hypothesis.
Collapse
|