1
|
Kakei Y, Masuda H, Nishizawa NK, Hattori H, Aung MS. Elucidation of Novel cis-Regulatory Elements and Promoter Structures Involved in Iron Excess Response Mechanisms in Rice Using a Bioinformatics Approach. Front Plant Sci 2021; 12:660303. [PMID: 34149757 PMCID: PMC8207140 DOI: 10.3389/fpls.2021.660303] [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] [Subscribe] [Scholar Register] [Received: 01/29/2021] [Accepted: 04/06/2021] [Indexed: 05/24/2023]
Abstract
Iron (Fe) excess is a major constraint on crop production in flooded acidic soils, particularly in rice cultivation. Under Fe excess, plants activate a complex mechanism and network regulating Fe exclusion by roots and isolation in various tissues. In rice, the transcription factors and cis-regulatory elements (CREs) that regulate Fe excess response mechanisms remain largely elusive. We previously reported comprehensive microarray analyses of several rice tissues in response to various levels of Fe excess stress. In this study, we further explored novel CREs and promoter structures in rice using bioinformatics approaches with this microarray data. We first performed network analyses to predict Fe excess-related CREs through the categorization of the gene expression patterns of Fe excess-responsive transcriptional regulons, and found four major expression clusters: Fe storage type, Fe chelator type, Fe uptake type, and WRKY and other co-expression type. Next, we explored CREs within these four clusters of gene expression types using a machine-learning method called microarray-associated motif analyzer (MAMA), which we previously established. Through a comprehensive bioinformatics approach, we identified a total of 560 CRE candidates extracted by MAMA analyses and 42 important conserved sequences of CREs directly related to the Fe excess response in various rice tissues. We explored several novel cis-elements as candidate Fe excess CREs including GCWGCWGC, CGACACGC, and Myb binding-like motifs. Based on the presence or absence of candidate CREs using MAMA and known PLACE CREs, we found that the Boruta-XGBoost model explained expression patterns with high accuracy of about 83%. Enriched sequences of both novel MAMA CREs and known PLACE CREs led to high accuracy expression patterns. We also found new roles of known CREs in the Fe excess response, including the DCEp2 motif, IDEF1-, Zinc Finger-, WRKY-, Myb-, AP2/ERF-, MADS- box-, bZIP and bHLH- binding sequence-containing motifs among Fe excess-responsive genes. In addition, we built a molecular model and promoter structures regulating Fe excess-responsive genes based on new finding CREs. Together, our findings about Fe excess-related CREs and conserved sequences will provide a comprehensive resource for discovery of genes and transcription factors involved in Fe excess-responsive pathways, clarification of the Fe excess response mechanism in rice, and future application of the promoter sequences to produce genotypes tolerant of Fe excess.
Collapse
Affiliation(s)
- Yusuke Kakei
- Institute of Vegetable and Floriculture Science, Research Center for Agricultural Information Technology, National Agriculture and Food Research Organization, Ibaraki, Japan
| | - Hiroshi Masuda
- Faculty of Bioresource Sciences, Department of Biological Production, Akita Prefectural University, Akita, Japan
| | - Naoko K. Nishizawa
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Ishikawa, Japan
| | - Hiroyuki Hattori
- Faculty of Bioresource Sciences, Department of Biological Production, Akita Prefectural University, Akita, Japan
| | - May Sann Aung
- Faculty of Bioresource Sciences, Department of Biological Production, Akita Prefectural University, Akita, Japan
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Ishikawa, Japan
| |
Collapse
|
2
|
Afrin SZ, Paul SK, Begum JA, Nasreen SA, Ahmed S, Ahmad FU, Aziz MA, Parvin R, Aung MS, Kobayashi N. Extensive genetic diversity with novel mutations in spike glycoprotein of severe acute respiratory syndrome coronavirus 2, Bangladesh in late 2020. New Microbes New Infect 2021; 41:100889. [PMID: 33936746 PMCID: PMC8065242 DOI: 10.1016/j.nmni.2021.100889] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [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: 03/29/2021] [Accepted: 04/20/2021] [Indexed: 02/07/2023] Open
Abstract
In Bangladesh, coronavirus disease 2019 (COVID-19) has been highly prevalent during late 2020, with nearly 500 000 confirmed cases. In the present study, the spike (S) protein of severe acute respiratory coronavirus 2 (SARS-CoV-2) circulating in Bangladesh was genetically investigated to elucidate the diversity of mutations and their prevalence. The nucleotide sequence of the S protein gene was determined for 15 SARS-CoV-2 samples collected from eight divisions in Bangladesh, and analysed for mutations compared with the reference strain (hCoV-19/Wuhan/WIV04/2019). All the SARS-CoV-2 S genes were assigned to B.1 lineage in G clade, and individual S proteins had 1-25 mutations causing amino acid substitution/deletion. A total of 133 mutations were detected in 15 samples, with D614G being present in all the samples; 53 were novel mutations as of January 2021. On the receptor-binding domain, 21 substitutions including ten novel mutations were identified. Other novel mutations were located on the N-terminal domain (S1 subunit) and dispersed sites in the S2 subunit, including two substitutions that remove potential N-glycosylation sites. A P681R substitution adjacent to the furin cleavage site was detected in one sample. All the mutations detected were located on positions that are functionally linked to host transition, antigenic drift, host surface receptor binding or antibody recognition sites, and viral oligomerization interfaces, which presumably related to viral transmission and pathogenic capacity.
Collapse
Affiliation(s)
- S Z Afrin
- Department of Microbiology, Mymensingh Medical College, Mymensingh, Bangladesh
| | - S K Paul
- Department of Microbiology, Netrokona Medical College, Netrokona, Bangladesh
| | - J A Begum
- Department of Pathology, Faculty of Veterinary Science, Bangladesh Agricultural University, Mymensingh, Bangladesh
| | - S A Nasreen
- Department of Microbiology, Mymensingh Medical College, Mymensingh, Bangladesh
| | - S Ahmed
- Department of Microbiology, Mymensingh Medical College, Mymensingh, Bangladesh
| | - F U Ahmad
- Department of Microbiology, TMSS Medical College, Bogura, Bangladesh
| | - M A Aziz
- Department of Microbiology, Rangpur Medical College, Rangpur, Bangladesh
| | - R Parvin
- Department of Pathology, Faculty of Veterinary Science, Bangladesh Agricultural University, Mymensingh, Bangladesh
| | - M S Aung
- Department of Hygiene, Sapporo Medical University School of Medicine, Sapporo, Japan
| | - N Kobayashi
- Department of Hygiene, Sapporo Medical University School of Medicine, Sapporo, Japan
| |
Collapse
|
3
|
Suzuki M, Urabe A, Sasaki S, Tsugawa R, Nishio S, Mukaiyama H, Murata Y, Masuda H, Aung MS, Mera A, Takeuchi M, Fukushima K, Kanaki M, Kobayashi K, Chiba Y, Shrestha BB, Nakanishi H, Watanabe T, Nakayama A, Fujino H, Kobayashi T, Tanino K, Nishizawa NK, Namba K. Development of a mugineic acid family phytosiderophore analog as an iron fertilizer. Nat Commun 2021; 12:1558. [PMID: 33692352 PMCID: PMC7946895 DOI: 10.1038/s41467-021-21837-6] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2020] [Accepted: 02/02/2021] [Indexed: 11/09/2022] Open
Abstract
Iron (Fe) is an essential nutrient, but is poorly bioavailable because of its low solubility in alkaline soils; this leads to reduced agricultural productivity. To overcome this problem, we first showed that the soil application of synthetic 2'-deoxymugineic acid, a natural phytosiderophore from the Poaceae, can recover Fe deficiency in rice grown in calcareous soil. However, the high cost and poor stability of synthetic 2'-deoxymugineic acid preclude its agricultural use. In this work, we develop a more stable and less expensive analog, proline-2'-deoxymugineic acid, and demonstrate its practical synthesis and transport of its Fe-chelated form across the plasma membrane by Fe(III)•2'-deoxymugineic acid transporters. Possibility of its use as an iron fertilizer on alkaline soils is supported by promotion of rice growth in a calcareous soil by soil application of metal free proline-2'-deoxymugineic acid.
Collapse
Affiliation(s)
| | - Atsumi Urabe
- Department of Pharmaceutical Sciences, Tokushima University, Tokushima, Japan
| | - Sayaka Sasaki
- Department of Pharmaceutical Sciences, Tokushima University, Tokushima, Japan
| | - Ryo Tsugawa
- Department of Pharmaceutical Sciences, Tokushima University, Tokushima, Japan
| | - Satoshi Nishio
- Department of Pharmaceutical Sciences, Tokushima University, Tokushima, Japan
| | - Haruka Mukaiyama
- Department of Pharmaceutical Sciences, Tokushima University, Tokushima, Japan
| | - Yoshiko Murata
- Bioorganic Research Institute, Suntory Foundation for Life Sciences, Soraku-gun, Kyoto, Japan
| | - Hiroshi Masuda
- Ishikawa Prefectural University, Nonoichi, Ishikawa, Japan.,Akita Prefectural University, Akita, Japan
| | - May Sann Aung
- Ishikawa Prefectural University, Nonoichi, Ishikawa, Japan.,Akita Prefectural University, Akita, Japan
| | - Akane Mera
- Aichi Steel Corporation, Tokai-shi, Aichi, Japan
| | - Masaki Takeuchi
- Department of Pharmaceutical Sciences, Tokushima University, Tokushima, Japan
| | - Keijo Fukushima
- Department of Pharmaceutical Sciences, Tokushima University, Tokushima, Japan
| | - Michika Kanaki
- Graduate School of Chemical Sciences and Engineering, Hokkaido University, Sapporo, Japan
| | - Kaori Kobayashi
- Graduate School of Chemical Sciences and Engineering, Hokkaido University, Sapporo, Japan
| | - Yuichi Chiba
- The University of Tokyo, Bunkyo-ku, Tokyo, Japan
| | - Binod Babu Shrestha
- Department of Pharmaceutical Sciences, Tokushima University, Tokushima, Japan
| | | | - Takehiro Watanabe
- Bioorganic Research Institute, Suntory Foundation for Life Sciences, Soraku-gun, Kyoto, Japan
| | - Atsushi Nakayama
- Department of Pharmaceutical Sciences, Tokushima University, Tokushima, Japan
| | - Hiromichi Fujino
- Department of Pharmaceutical Sciences, Tokushima University, Tokushima, Japan
| | | | - Keiji Tanino
- Faculty of Science, Hokkaido University, Sapporo, Japan
| | - Naoko K Nishizawa
- Ishikawa Prefectural University, Nonoichi, Ishikawa, Japan.,The University of Tokyo, Bunkyo-ku, Tokyo, Japan
| | - Kosuke Namba
- Department of Pharmaceutical Sciences, Tokushima University, Tokushima, Japan.
| |
Collapse
|
4
|
Aung MS, Hlaing MS, San N, Aung MT, Mar TT, Kobayashi N. Clonal diversity of Acinetobacter baumannii clinical isolates in Myanmar: identification of novel ST1407 harbouring blaNDM-1. New Microbes New Infect 2021; 40:100847. [PMID: 33732472 PMCID: PMC7944022 DOI: 10.1016/j.nmni.2021.100847] [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] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2021] [Revised: 01/22/2021] [Accepted: 02/02/2021] [Indexed: 01/22/2023] Open
Abstract
Recent Acinetobacter baumannii clinical isolates in a teaching hospital in Myanmar comprised three major sequence types (ST2, ST16 and ST23) and two sporadic STs, showing a high resistance rate to carbapenem associated with blaOXA-23 . The NDM-1 encoding gene was identified in only one isolate exhibiting novel ST1407 (a triple-locus variant of ST16).
Collapse
Affiliation(s)
- M S Aung
- Sapporo Medical University School of Medicine, Sapporo, Japan
| | - M S Hlaing
- University of Medicine 2, Yangon, Myanmar
| | - N San
- University of Medicine 2, Yangon, Myanmar
| | - M T Aung
- North Okkalapa General and Teaching Hospital, Yangon, Myanmar
| | - T T Mar
- University of Medicine 1, Yangon, Myanmar
| | - N Kobayashi
- Sapporo Medical University School of Medicine, Sapporo, Japan
| |
Collapse
|
5
|
Aung MS, Masuda H. Corrigendum: How Does Rice Defend Against Excess Iron?: Physiological and Molecular Mechanisms. Front Plant Sci 2020; 11:601527. [PMID: 33329668 PMCID: PMC7714916 DOI: 10.3389/fpls.2020.601527] [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: 09/01/2020] [Accepted: 10/09/2020] [Indexed: 06/12/2023]
Abstract
[This corrects the article DOI: 10.3389/fpls.2020.01102.].
Collapse
|
6
|
Aung MS, Masuda H. How Does Rice Defend Against Excess Iron?: Physiological and Molecular Mechanisms. Front Plant Sci 2020; 11:1102. [PMID: 32849682 PMCID: PMC7426474 DOI: 10.3389/fpls.2020.01102,] [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] [Subscribe] [Scholar Register] [Received: 03/27/2020] [Accepted: 07/03/2020] [Indexed: 05/29/2023]
Abstract
Iron (Fe) is an essential nutrient for all living organisms but can lead to cytotoxicity when present in excess. Fe toxicity often occurs in rice grown in submerged paddy fields with low pH, leading dramatical increases in ferrous ion concentration, disrupting cell homeostasis and impairing growth and yield. However, the underlying molecular mechanisms of Fe toxicity response and tolerance in plants are not well characterized yet. Microarray and genome-wide association analyses have shown that rice employs four defense systems to regulate Fe homeostasis under Fe excess. In defense 1, Fe excess tolerance is implemented by Fe exclusion as a result of suppression of genes involved in Fe uptake and translocation such as OsIRT1, OsYSL2, OsTOM1, OsYSL15, OsNRAMP1, OsNAS1, OsNAS2, OsNAAT1, OsDMAS1, and OsIRO2. The Fe-binding ubiquitin ligase, HRZ, is a key regulator that represses Fe uptake genes in response to Fe excess in rice. In defense 2, rice retains Fe in the root system rather than transporting it to shoots. In defense 3, rice compartmentalizes Fe in the shoot. In defense 2 and 3, the vacuolar Fe transporter OsVIT2, Fe storage protein ferritin, and the nicotinamine synthase OsNAS3 mediate the isolation or detoxification of excess Fe. In defense 4, rice detoxifies the ROS produced within the plant body in response to excess Fe. Some OsWRKY transcription factors, S-nitrosoglutathione-reductase variants, p450-family proteins, and OsNAC4, 5, and 6 are implicated in defense 4. These knowledge will facilitate the breeding of tolerant crops with increased productivity in low-pH, Fe-excess soils.
Collapse
|
7
|
Aung MS, Masuda H. How Does Rice Defend Against Excess Iron?: Physiological and Molecular Mechanisms. Front Plant Sci 2020; 11:1102. [PMID: 32849682 PMCID: PMC7426474 DOI: 10.3389/fpls.2020.01102] [Citation(s) in RCA: 29] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/27/2020] [Accepted: 07/03/2020] [Indexed: 05/25/2023]
Abstract
Iron (Fe) is an essential nutrient for all living organisms but can lead to cytotoxicity when present in excess. Fe toxicity often occurs in rice grown in submerged paddy fields with low pH, leading dramatical increases in ferrous ion concentration, disrupting cell homeostasis and impairing growth and yield. However, the underlying molecular mechanisms of Fe toxicity response and tolerance in plants are not well characterized yet. Microarray and genome-wide association analyses have shown that rice employs four defense systems to regulate Fe homeostasis under Fe excess. In defense 1, Fe excess tolerance is implemented by Fe exclusion as a result of suppression of genes involved in Fe uptake and translocation such as OsIRT1, OsYSL2, OsTOM1, OsYSL15, OsNRAMP1, OsNAS1, OsNAS2, OsNAAT1, OsDMAS1, and OsIRO2. The Fe-binding ubiquitin ligase, HRZ, is a key regulator that represses Fe uptake genes in response to Fe excess in rice. In defense 2, rice retains Fe in the root system rather than transporting it to shoots. In defense 3, rice compartmentalizes Fe in the shoot. In defense 2 and 3, the vacuolar Fe transporter OsVIT2, Fe storage protein ferritin, and the nicotinamine synthase OsNAS3 mediate the isolation or detoxification of excess Fe. In defense 4, rice detoxifies the ROS produced within the plant body in response to excess Fe. Some OsWRKY transcription factors, S-nitrosoglutathione-reductase variants, p450-family proteins, and OsNAC4, 5, and 6 are implicated in defense 4. These knowledge will facilitate the breeding of tolerant crops with increased productivity in low-pH, Fe-excess soils.
Collapse
|
8
|
Sakurada M, Sumi H, Kaji K, Kobayashi N, Sakai Y, Aung MS, Urushibara N, Kobayashi N. Pacemaker-associated infection caused by ST81/SCC mec IV methicillin-resistant, vancomycin-intermediate Staphylococcus aureus in Japan. New Microbes New Infect 2020; 35:100656. [PMID: 32215211 PMCID: PMC7083773 DOI: 10.1016/j.nmni.2020.100656] [Citation(s) in RCA: 4] [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] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2019] [Revised: 01/20/2020] [Accepted: 02/10/2020] [Indexed: 12/20/2022] Open
Abstract
A 76-year-old Japanese man was admitted to hospital for treatment of fever and skin lesion at the implantation site of his pacemaker. During his hospitalization, vancomycin-intermediate Staphylococcus aureus (MIC 4 μg/mL) with reduced susceptibility to daptomycin was isolated from venous blood. This isolate was identified as methicillin-resistant S. aureus with SCCmec IV and was genotyped as sequence type 81, coa VIIa and spa type t7044, harbouring blaZ, aac(6′)-aph(2″) and enterotoxin(-like) genes sea, seb, sek, sel, selx and selw. The patient was successfully treated with daptomycin, minocycline and sulfamethoxazole/trimethoprim. We describe the identification of sequence type 81/SCCmec IV vancomycin-intermediate S. aureus from pacemaker-associated septicaemia.
Collapse
Affiliation(s)
- M Sakurada
- Department of Pharmacy, Sapporo Medical University School of Medicine, Sapporo, Japan
| | - H Sumi
- Department of Pharmacy, Sapporo Medical University School of Medicine, Sapporo, Japan
| | - K Kaji
- Department of Pharmacy, Sapporo Medical University School of Medicine, Sapporo, Japan
| | - N Kobayashi
- Department of Laboratory, Sapporo Medical University School of Medicine, Sapporo, Japan
| | - Y Sakai
- Department of Paediatrics, Hakodate Municipal Hospital, Hakodate, Japan
| | - M S Aung
- Department of Hygiene, Sapporo Medical University School of Medicine, Sapporo, Japan
| | - N Urushibara
- Department of Hygiene, Sapporo Medical University School of Medicine, Sapporo, Japan
| | - N Kobayashi
- Department of Hygiene, Sapporo Medical University School of Medicine, Sapporo, Japan
| |
Collapse
|
9
|
Ahmad FU, Paul SK, Aung MS, Mazid R, Alam M, Ahmed S, Haque N, Hossain MA, Paul S, Sharmin R, Kobayashi N. Co-circulation of dengue virus type 3-genotype I and type 2-Cosmopolitan genotype in 2018 outbreak in Dhaka, Bangladesh. New Microbes New Infect 2019; 33:100629. [PMID: 31908784 PMCID: PMC6940688 DOI: 10.1016/j.nmni.2019.100629] [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: 09/15/2019] [Revised: 11/01/2019] [Accepted: 11/25/2019] [Indexed: 12/04/2022] Open
Abstract
Dengue virus (DENV) that caused an outbreak in Dhaka, Bangladesh during 2018 was analysed phylogenetically. DENV samples were classified into type 2-Cosmopolitan genotype (54%) and type 3-genotype I (46%), indicating co-circulation of two DENV types and resurgence of type 3 associated with genotype replacement.
Collapse
Affiliation(s)
- F U Ahmad
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - S K Paul
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - M S Aung
- Sapporo Medical University School of Medicine, Sapporo, Japan
| | - R Mazid
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - M Alam
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - S Ahmed
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - N Haque
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - M A Hossain
- Imperial Hospital Limited, Chittagong, Bangladesh
| | - S Paul
- Sir Salimullah Medical College, Dhaka, Bangladesh
| | - R Sharmin
- Dhaka Medical College, Dhaka, Bangladesh
| | - N Kobayashi
- Sapporo Medical University School of Medicine, Sapporo, Japan
| |
Collapse
|
10
|
Al Amin MM, Paul SK, Aung MS, Paul A, Aziz MA, Khan NA, Haque AKMF, Ahamed F, Melan A, Sarker SR, Hossain MA, Ahmed S, Nasreen SA, Haque N, Kobayashi N. Molecular characterization of Orientia tsutsugamushi causing scrub typhus among febrile patients in north-central Bangladesh. New Microbes New Infect 2019; 32:100595. [PMID: 31641512 PMCID: PMC6796758 DOI: 10.1016/j.nmni.2019.100595] [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] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2019] [Revised: 08/19/2019] [Accepted: 08/21/2019] [Indexed: 01/30/2023] Open
Abstract
Scrub typhus is a mite-borne rickettsial disease caused by Orientia tsutsugamushi, which is endemic in Asia Pacific region. In this study, infection rate and molecular epidemiologic traits of O. tsutsugamushi was investigated in Mymensingh, located in north-central Bangladesh. Among the blood samples from 453 febrile patients who visited Mymensingh medical college hospital in 2018, the 47 kDa protein gene of O. tsutsugamushi was detected in 78 samples (17.2%) by nested PCR. Phylogenetic analysis of the O. tsutsugamushi 56 kDa protein gene (18 samples) revealed a predominance of Karp-related genotype (89%), while the remaining belonged to Gilliam genotype. Samples of the Karp-related genotype mostly clustered with those of China, Taiwan, Thailand and India, etc., in emergent subgroups clades 2 and 4, which were distinct from clade 1, including prototype Karp strains. Among the 18 samples, three variable domains (VD) of 56 kDa type-specific antigen had different types of sequence diversity; VDI contained two or three repeats of eight amino acid units, while VDII and VDIII had amino acid substitution, deletion or insertion. The present study documented a potentially high prevalence of genetically diverse O. tsutsugamushi in north-central Bangladesh.
Collapse
Affiliation(s)
- M M Al Amin
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - S K Paul
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - M S Aung
- Sapporo Medical University School of Medicine, Sapporo, Japan
| | - A Paul
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - M A Aziz
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - N A Khan
- Mymensingh Medical College, Mymensingh, Bangladesh
| | | | - F Ahamed
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - A Melan
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - S R Sarker
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - M A Hossain
- National Institute of Preventive and Social Medicine (NIPSOM), Dhaka, Bangladesh
| | - S Ahmed
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - S A Nasreen
- Sheikh Hasina Medical College, Jamalpur, Bangladesh
| | - N Haque
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - N Kobayashi
- Sapporo Medical University School of Medicine, Sapporo, Japan
| |
Collapse
|
11
|
Aung MS, Masuda H, Nozoye T, Kobayashi T, Jeon JS, An G, Nishizawa NK. Nicotianamine Synthesis by OsNAS3 Is Important for Mitigating Iron Excess Stress in Rice. Front Plant Sci 2019; 10:660. [PMID: 31231401 PMCID: PMC6558524 DOI: 10.3389/fpls.2019.00660] [Citation(s) in RCA: 10] [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] [Subscribe] [Scholar Register] [Received: 01/31/2019] [Accepted: 05/02/2019] [Indexed: 05/24/2023]
Abstract
Iron (Fe) toxicity in plants causes tissue damage and cellular homeostasis disorders, thereby affecting plant growth and development. Nicotianamine (NA) is a ubiquitous chelator of metal cations and is responsible for metal homeostasis. Rice has three NA synthase (NAS) genes, of which the expression of OsNAS1 and OsNAS2 but not of OsNAS3 is strongly induced in response to Fe deficiency. Recently, we found that OsNAS3 expression is strongly induced with excess Fe in most rice tissues, particularly old leaves, suggesting that it may play a vital role under excess Fe conditions. However, the mechanism by which OsNAS3 responds to excess Fe in rice remains poorly understood. In this study, we clarified the physiological response of OsNAS3 expression to excess Fe and the role of NA synthesis in this condition. Promoter GUS analyses revealed that OsNAS3 was widely expressed in roots, especially in vascular bundle, epidermis, exodermis, stem, and old leaf tissues under Fe excess compared to control plants. Nicotianamine and deoxymugineic acid (DMA; a type of phytosiderophore synthesized by Strategy II species) were present in roots and shoots under Fe excess likewise under control conditions. In addition, OsNAS3 knockout plants were sensitive to excess Fe, exhibiting inferior growth, reduced dry weight, severer leaf bronzing, and greater Fe accumulation in their leaves than non-transformants with excess Fe. We also observed that NA-overproducing rice was tolerant of excess Fe. These results show that NA synthesized by OsNAS3 under Fe excess condition is to mitigate excess Fe whereas NA synthesized by OsNAS1 and OsNAS2 under normal Fe condition is to enhance Fe translocation, suggesting the different roles and functions of the NA existence between these two conditions. Overall, these findings suggest that rice synthesizes NA with OsNAS3 under Fe excess in roots and shoots, and that NA and DMA within the plant body are important for mitigating excess Fe stress and alleviating other metal deficiencies in rice. This report will be important for the development of tolerant rice adapted to Fe-contaminated soils.
Collapse
Affiliation(s)
- May Sann Aung
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Ishikawa, Japan
- Department of Biological Production, Faculty of Bioresource Sciences, Akita Prefectural University, Akita, Japan
| | - Hiroshi Masuda
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Ishikawa, Japan
- Department of Biological Production, Faculty of Bioresource Sciences, Akita Prefectural University, Akita, Japan
| | - Tomoko Nozoye
- Center for Liberal Arts, Meiji Gakuin University, Kanagawa, Japan
- Department of Global Agricultural Sciences, The University of Tokyo, Tokyo, Japan
| | - Takanori Kobayashi
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Ishikawa, Japan
| | - Jong-Seong Jeon
- Crop Biotech Institute and Graduate School of Biotechnology, Kyung Hee University, Yongin, South Korea
| | - Gynheung An
- Crop Biotech Institute and Graduate School of Biotechnology, Kyung Hee University, Yongin, South Korea
| | - Naoko K. Nishizawa
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Ishikawa, Japan
- Department of Global Agricultural Sciences, The University of Tokyo, Tokyo, Japan
| |
Collapse
|
12
|
Aziz MA, Aung MS, Paul SK, Ahmed S, Haque N, Roy S, Al Amin M, Paul A, Miah MAH, Alam MK, Islam MS, Hossain MA, Kobayashi N. First molecular identification of two Leptospira species ( Leptospira interrogans and Leptospira wolffii) in Bangladesh. New Microbes New Infect 2019; 31:100570. [PMID: 31297196 PMCID: PMC6597691 DOI: 10.1016/j.nmni.2019.100570] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [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: 03/15/2019] [Revised: 05/16/2019] [Accepted: 05/17/2019] [Indexed: 11/25/2022] Open
Abstract
Leptospiral 16S rRNA genes were detected in 13 blood samples from 74 febrile patients in north-central Bangladesh, and their sequences phylogenetically clustered with those of Leptospira interrogans or Leptospira wolffii. Genetic diversity in O-antigen polymerase (wzy) was found in an L. interrogans sample.
Collapse
Affiliation(s)
- M A Aziz
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - M S Aung
- Sapporo Medical University School of Medicine, Sapporo, Japan
| | - S K Paul
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - S Ahmed
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - N Haque
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - S Roy
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - M Al Amin
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - A Paul
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - M A H Miah
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - M K Alam
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - M S Islam
- Bangladesh Agricultural University, Mymensingh, Bangladesh
| | - M A Hossain
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - N Kobayashi
- Sapporo Medical University School of Medicine, Sapporo, Japan
| |
Collapse
|
13
|
San N, Aung MS, Thu PP, Myint YY, Aung MT, San T, Mar TT, Lwin MM, Maw WW, Hlaing MS, Kobayashi N. First detection of the mcr-1 colistin resistance gene in Escherichia coli from a patient with urinary tract infection in Myanmar. New Microbes New Infect 2019; 30:100550. [PMID: 31110773 PMCID: PMC6510964 DOI: 10.1016/j.nmni.2019.100550] [Citation(s) in RCA: 5] [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] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2019] [Revised: 03/08/2019] [Accepted: 04/02/2019] [Indexed: 11/17/2022] Open
Abstract
Colistin-resistance gene mcr-1 was detected in an Escherichia coli sample among 442 clinical isolates collected in a tertiary-care hospital in Yangon, Myanmar, in 2018. This isolate was classified into phylogroup A–ST23 complex and harboured blaCTX-M-15 and blaTEM-1, associated with multiple mutations in quinolone-resistance–determining regions in gyrA and parC.
Collapse
Affiliation(s)
- N San
- Department of Microbiology, University of Medicine 2, Yangon, Myanmar
| | - M S Aung
- Sapporo Medical University School of Medicine, Sapporo, Japan
| | - P P Thu
- Department of Microbiology, University of Medicine 2, Yangon, Myanmar
| | - Y Y Myint
- Department of Microbiology, University of Medicine 2, Yangon, Myanmar
| | - M T Aung
- North Okkalapa General and Teaching Hospital, Yangon, Myanmar
| | - T San
- Yangon Children's Hospital, Ministry of Health and Sports, Yangon, Myanmar
| | - T T Mar
- Department of Microbiology, University of Medicine 2, Yangon, Myanmar
| | - M M Lwin
- Department of Microbiology, University of Medicine 2, Yangon, Myanmar
| | - W W Maw
- Department of Microbiology, University of Medicine 2, Yangon, Myanmar
| | - M S Hlaing
- Department of Microbiology, University of Medicine 2, Yangon, Myanmar
| | - N Kobayashi
- Sapporo Medical University School of Medicine, Sapporo, Japan
| |
Collapse
|
14
|
Masuda H, Aung MS, Kobayashi T, Hamada T, Nishizawa NK. Enhancement of Iron Acquisition in Rice by the Mugineic Acid Synthase Gene With Ferric Iron Reductase Gene and OsIRO2 Confers Tolerance in Submerged and Nonsubmerged Calcareous Soils. Front Plant Sci 2019; 10:1179. [PMID: 31681346 PMCID: PMC6813920 DOI: 10.3389/fpls.2019.01179] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/30/2019] [Accepted: 08/29/2019] [Indexed: 05/19/2023]
Abstract
Iron (Fe) is an essential micronutrient for plants. Plants encounter Fe deficiency when grown in calcareous soil with low Fe availability, leading to reduced crop yield and agricultural problem. Rice acquires Fe from the soil via Strategy I-related system (ferrous ion uptake by OsIRT1) and Strategy II system (ferric ion uptake by chelation). However, rice plants have a weak ability in Fe(III) reduction and phytosiderophore secretion. We previously produced an Fe deficiency-tolerant rice harboring OsIRT1 promoter-refre1/372 (for higher Fe(III) reductase ability) and a 35S promoter-OsIRO2 (for higher phytosiderophore secretion). In this study, we produced a new Fe deficiency-tolerant rice by the additional introduction of a barley IDS3 genome fragment with refre1/372 and OsIRO2 (named as IRI lines) for further enhancement in Strategy II phytosiderophore productivity and better growth performance in various environments. Our results show that an enhanced tolerance was observed in OsIRO2 introduced line at the early growth stage, refre1/372 introduced line in the late stage, and RI line in all stages among five types of cultivation method. Moreover, we demonstrated that new IRI rice lines exhibited enhanced tolerance to Fe deficiency compared to nontransgenic (NT) rice and rice lines harboring the overexpressing OsIRO2 or the IDS3 fragment under submerged calcareous soil. The yields of IRI lines were ninefold higher than the NT line. Furthermore, under Fe-limited nonsubmerged calcareous soil condition (a new cultivation condition), IRI lines also conferred enhanced tolerance than NT, lines introducing only the OsIRT1 promoter-refre1/372 or overexpressing OsIRO2, and lines harboring both. Our results demonstrate that further enhancement of the Strategy II Fe uptake system by the mugineic acid synthase gene in addition to Fe uptake by enhanced ferric Fe reduction and phytosiderophore production in rice contributes Fe deficiency tolerance and broaden its utility in calcareous soil cultivation under paddy or nonpaddy field conditions.
Collapse
Affiliation(s)
- Hiroshi Masuda
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Ishikawa, Japan
- Department of Biological Production, Faculty of Bioresource Sciences, Akita Prefectural University, Akita, Japan
| | - May Sann Aung
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Ishikawa, Japan
- Department of Biological Production, Faculty of Bioresource Sciences, Akita Prefectural University, Akita, Japan
| | - Takanori Kobayashi
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Ishikawa, Japan
| | - Tatsuro Hamada
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Ishikawa, Japan
| | - Naoko K. Nishizawa
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Ishikawa, Japan
- *Correspondence: Naoko K. Nishizawa,
| |
Collapse
|
15
|
Aung MS, Kobayashi T, Masuda H, Nishizawa NK. Rice HRZ ubiquitin ligases are crucial for response to excess iron. Physiol Plant 2018; 163:282-296. [PMID: 29655221 DOI: 10.1111/ppl.12698] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/10/2017] [Revised: 01/22/2018] [Accepted: 02/01/2018] [Indexed: 05/06/2023]
Abstract
Iron is essential for virtually all organisms but is toxic when present in excess. To acquire the proper amount of iron, plants induce expression of various genes involved in iron uptake and translocation in response to low iron availability. Two iron-binding ubiquitin ligases, OsHRZ1 and OsHRZ2, negatively regulate such iron deficiency responses in rice (Oryza sativa). Transgenic rice plants with repressed expression of OsHRZ1 and OsHRZ2 (HRZ knockdown lines) are tolerant to low iron availability and accumulate iron in shoots and seeds under both iron-sufficient and -deficient conditions without a growth penalty. Although the expression of OsHRZ1 and OsHRZ2 is transcriptionally upregulated under iron-deficient conditions, the physiological relevance of this induction is not known. In the present study, we analyzed the response of HRZ knockdown lines to excess iron. In the presence of severe excess iron, the HRZ knockdown lines grew worse than non-transformants. The HRZ knockdown lines showed stunted shoot and root growth and more severe leaf bronzing compared to non-transformants. Moreover, these lines accumulated more iron in shoots and exhibited severely elevated expression of various genes involved in iron uptake and translocation as well as jasmonate signaling compared to non-transformants. These results indicate that HRZ ubiquitin ligases are crucial for repressing iron deficiency responses and protecting cells from iron toxicity in the presence of excess iron. These results support the possibility that HRZs are intracellular Fe sensors and provide clues for developing plants tolerant of either iron deficiency or excess with higher iron contents in edible parts.
Collapse
Affiliation(s)
- May Sann Aung
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Nonoichi, 921-8836, Japan
| | - Takanori Kobayashi
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Nonoichi, 921-8836, Japan
| | - Hiroshi Masuda
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Nonoichi, 921-8836, Japan
| | - Naoko K Nishizawa
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Nonoichi, 921-8836, Japan
| |
Collapse
|
16
|
Senoura T, Sakashita E, Kobayashi T, Takahashi M, Aung MS, Masuda H, Nakanishi H, Nishizawa NK. The iron-chelate transporter OsYSL9 plays a role in iron distribution in developing rice grains. Plant Mol Biol 2017; 95:375-387. [PMID: 28871478 DOI: 10.1007/s11103-017-0656-y] [Citation(s) in RCA: 67] [Impact Index Per Article: 9.6] [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: 02/28/2017] [Accepted: 08/28/2017] [Indexed: 05/03/2023]
Abstract
Rice OsYSL9 is a novel transporter for Fe(II)-nicotianamine and Fe(III)-deoxymugineic acid that is responsible for internal iron transport, especially from endosperm to embryo in developing seeds. Metal chelators are essential for safe and efficient metal translocation in plants. Graminaceous plants utilize specific ferric iron chelators, mugineic acid family phytosiderophores, to take up sparingly soluble iron from the soil. Yellow Stripe 1-Like (YSL) family transporters are responsible for transport of metal-phytosiderophores and structurally similar metal-nicotianamine complexes. Among the rice YSL family members (OsYSL) whose functions have not yet been clarified, OsYSL9 belongs to an uncharacterized subgroup containing highly conserved homologs in graminaceous species. In the present report, we showed that OsYSL9 localizes mainly to the plasma membrane and transports both iron(II)-nicotianamine and iron(III)-deoxymugineic acid into the cell. Expression of OsYSL9 was induced in the roots but repressed in the nonjuvenile leaves in response to iron deficiency. In iron-deficient roots, OsYSL9 was induced in the vascular cylinder but not in epidermal cells. Although OsYSL9-knockdown plants did not show a growth defect under iron-sufficient conditions, these plants were more sensitive to iron deficiency in the nonjuvenile stage compared with non-transgenic plants. At the grain-filling stage, OsYSL9 expression was strongly and transiently induced in the scutellum of the embryo and in endosperm cells surrounding the embryo. The iron concentration was decreased in embryos of OsYSL9-knockdown plants but was increased in residual parts of brown seeds. These results suggested that OsYSL9 is involved in iron translocation within plant parts and particularly iron translocation from endosperm to embryo in developing seeds.
Collapse
Affiliation(s)
- Takeshi Senoura
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, 1-308 Suematsu, Nonoichi, Ishikawa, 921-8836, Japan
- KUBIX Inc., 3-570 Suematsu, Nonoichi, Ishikawa, 921-8836, Japan
| | - Emi Sakashita
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, 1-308 Suematsu, Nonoichi, Ishikawa, 921-8836, Japan
| | - Takanori Kobayashi
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, 1-308 Suematsu, Nonoichi, Ishikawa, 921-8836, Japan
| | - Michiko Takahashi
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, 113-8657, Japan
- Faculty of Agriculture, Utsunomiya University, 350 Mine-machi, Utsunomioya, Tochigi, 321-8505, Japan
| | - May Sann Aung
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, 1-308 Suematsu, Nonoichi, Ishikawa, 921-8836, Japan
| | - Hiroshi Masuda
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, 1-308 Suematsu, Nonoichi, Ishikawa, 921-8836, Japan
| | - Hiromi Nakanishi
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, 113-8657, Japan
| | - Naoko K Nishizawa
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, 1-308 Suematsu, Nonoichi, Ishikawa, 921-8836, Japan.
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, 113-8657, Japan.
| |
Collapse
|
17
|
Chowdhury NF, Paul SK, Aung MS, Hossain MA, Ahamed F, Ahmed S, Haque N, Nasreen SA, Khan SI, Rahman SMM, Rahman ASMM, Ferdouse F, Ahmed R, Sultan SM, Ahmed MU, Urushibara N, Kobayashi N. Nationwide prevalence of Rickettsia felis infections in patients with febrile illness in Bangladesh. New Microbes New Infect 2017; 19:123-125. [PMID: 28831298 PMCID: PMC5552056 DOI: 10.1016/j.nmni.2017.07.005] [Citation(s) in RCA: 2] [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] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2017] [Revised: 07/03/2017] [Accepted: 07/11/2017] [Indexed: 11/27/2022] Open
Abstract
From July 2015 to December 2016, the presence of rickettsial pathogens was investigated for 414 patients with unknown fever in eight places in all the divisions of Bangladesh. Rickettsia felis was identified in blood samples from all the regions (overall detection rate, 19.6%), suggesting nationwide prevalence of R. felis infections.
Collapse
Affiliation(s)
| | - S K Paul
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - M S Aung
- Sapporo Medical University School of Medicine, Sapporo, Japan
| | - M A Hossain
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - F Ahamed
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - S Ahmed
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - N Haque
- Mymensingh Medical College, Mymensingh, Bangladesh
| | - S A Nasreen
- Jamalpur Medical College, Jamalpur, Bangladesh
| | - S I Khan
- Patuakhali Medical College, Patuakhali, Bangladesh
| | | | | | - F Ferdouse
- Shaheed Monsur Ali Medical College, Dhaka, Bangladesh
| | - R Ahmed
- Manikganj Medical College, Manikganj, Bangladesh
| | - S M Sultan
- Uttara Adhunik Medical College, Dhaka, Bangladesh
| | - M U Ahmed
- Bangladesh Agricultural University, Mymensingh, Bangladesh
| | - N Urushibara
- Sapporo Medical University School of Medicine, Sapporo, Japan
| | - N Kobayashi
- Sapporo Medical University School of Medicine, Sapporo, Japan
| |
Collapse
|
18
|
Togashi A, Aung MS, Yoto Y, Akane Y, Tsugawa T, Kawaguchiya M, Tsutsumi H, Kobayashi N. First report of Panton-Valentine leukocidin-positive methicillin-susceptible Staphylococcus aureus ST88 harbouring ΦSa2usa isolated from refractory breast abscesses in Japan. New Microbes New Infect 2016; 13:62-4. [PMID: 27453786 PMCID: PMC4941198 DOI: 10.1016/j.nmni.2016.06.006] [Citation(s) in RCA: 2] [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] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2016] [Revised: 06/06/2016] [Accepted: 06/06/2016] [Indexed: 11/16/2022] Open
Abstract
A methicillin-susceptible Staphylococcus aureus with Panton–Valentine leukocidin (PVL) genes was isolated from refractory breast abscesses of 12-year-old girl in Japan, and classified into ST88, spa-t1245 and coa-IIIa. This strain harboured PVL phage ΦSa2usa, which is usually found in ST8 community-acquired methicillin-resistant S. aureus clone USA300.
Collapse
Affiliation(s)
- A Togashi
- Department of Paediatrics, Sapporo Medical University School of Medicine, Sapporo, Japan
| | - M S Aung
- Department of Hygiene, Sapporo Medical University School of Medicine, Sapporo, Japan
| | - Y Yoto
- Department of Paediatrics, Sapporo Medical University School of Medicine, Sapporo, Japan
| | - Y Akane
- Department of Paediatrics, Sapporo Medical University School of Medicine, Sapporo, Japan
| | - T Tsugawa
- Department of Paediatrics, Sapporo Medical University School of Medicine, Sapporo, Japan
| | - M Kawaguchiya
- Department of Hygiene, Sapporo Medical University School of Medicine, Sapporo, Japan
| | - H Tsutsumi
- Department of Paediatrics, Sapporo Medical University School of Medicine, Sapporo, Japan
| | - N Kobayashi
- Department of Hygiene, Sapporo Medical University School of Medicine, Sapporo, Japan
| |
Collapse
|
19
|
Pokhrel RH, Aung MS, Thapa B, Chaudhary R, Mishra SK, Kawaguchiya M, Urushibara N, Kobayashi N. Detection of ST772 Panton-Valentine leukocidin-positive methicillin-resistant Staphylococcus aureus (Bengal Bay clone) and ST22 S. aureus isolates with a genetic variant of elastin binding protein in Nepal. New Microbes New Infect 2016; 11:20-7. [PMID: 27014464 PMCID: PMC4789347 DOI: 10.1016/j.nmni.2016.02.001] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [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: 12/02/2015] [Revised: 02/03/2016] [Accepted: 02/03/2016] [Indexed: 11/25/2022] Open
Abstract
Genetic characteristics were analysed for recent clinical isolates of methicillin-resistant and -susceptible Staphylococcus aureus (MRSA and MSSA respectively) in Kathmandu, Nepal. MRSA isolates harbouring Panton-Valentine leukocidin (PVL) genes were classified into ST1, ST22 and ST88 with SCCmec-IV and ST772 with SCCmec-V (Bengal Bay clone), while PVL-positive MSSA into ST22, ST30 and ST772. ST22 isolates (PVL-positive MRSA and MSSA, PVL-negative MRSA) possessed a variant of elastin binding protein gene (ebpS) with an internal deletion of 180 bp, which was similar to that reported for ST121 S. aureus previously outside Nepal. Phylogenetic analysis indicated that the ebpS variant in ST22 might have occurred independently of ST121 strains. This is the first report of ST772 PVL-positive MRSA in Nepal and detection of the deletion variant of ebpS in ST22 S. aureus.
Collapse
Affiliation(s)
- R H Pokhrel
- Genesis Laboratory and Research, Tribhuvan University, Kathmandu, Nepal
| | - M S Aung
- Sapporo Medical University, Sapporo, Japan
| | - B Thapa
- Genesis Laboratory and Research, Tribhuvan University, Kathmandu, Nepal
| | - R Chaudhary
- Nepal Army Institute of Health Sciences, Tribhuvan University, Kathmandu, Nepal
| | - S K Mishra
- Institute of Medicine, Tribhuvan University, Kathmandu, Nepal
| | | | | | | |
Collapse
|
20
|
Kawaguchiya M, Urushibara N, Aung MS, Morimoto S, Ito M, Kudo K, Sumi A, Kobayashi N. Emerging non-PCV13 serotypes of noninvasive Streptococcus pneumoniae with macrolide resistance genes in northern Japan. New Microbes New Infect 2015; 9:66-72. [PMID: 26909157 PMCID: PMC4735479 DOI: 10.1016/j.nmni.2015.11.001] [Citation(s) in RCA: 28] [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] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2015] [Revised: 11/02/2015] [Accepted: 11/02/2015] [Indexed: 01/20/2023] Open
Abstract
In Japan, the 7-valent pneumococcal conjugate vaccine (PCV7) was introduced to the nation's routine immunization program in April 2013 and was replaced by the 13-valent pneumococcal conjugate vaccine (PCV13) in November 2013. Distribution of serotypes and macrolide resistance genotypes was investigated for a total of 1097 (975 children, 122 adults) and 960 (873 children, 87 adults) clinical isolates of Streptococcus pneumoniae from noninvasive infections in Hokkaido (northern main island of Japan) in the routine immunization periods for PCV7 and PCV13 (April–October 2013 and November 2013–November 2014, respectively). Serotype was determined by sequential multiplex PCR and additional genetic analyses. Macrolide resistance genes erm(B) and mef(A/E) were detected by multiplex PCR. Although the most prevalent serotypes in children were 23A and 6C in the PCV7 period, after replacement with PCV13, 19A became the most common, followed by 6C, 15A and 23A. Among adults, serotype 3 was consistently the most frequent throughout the study periods. Compared with values from the pre-PCV7 routine immunization period, PCV7 serotypes decreased from 48.3 to 3.3% in the PCV13 period among children, while the rates of non-PCV13 serotypes (particularly 15A, 23A, 11A, 10A and 35B) increased from 39.7 to 75.1% (p < 0.001). In the PCV13 period, erm(B), mef(A/E) and both of these genes were detected in 75.8, 31.6 and 11.3% of all isolates, respectively. Serotype 19A accounted for 76.9% of the isolates with both the macrolide resistance genes, and emerging non-PCV13 serotypes 15A, 15C and 23A mostly harboured erm(B).
Collapse
Affiliation(s)
- M Kawaguchiya
- Department of Hygiene, Sapporo Medical University School of Medicine, Japan
| | - N Urushibara
- Department of Hygiene, Sapporo Medical University School of Medicine, Japan
| | - M S Aung
- Department of Hygiene, Sapporo Medical University School of Medicine, Japan
| | - S Morimoto
- Sapporo Clinical Laboratory Inc., Sapporo, Hokkaido, Japan
| | - M Ito
- Sapporo Clinical Laboratory Inc., Sapporo, Hokkaido, Japan
| | - K Kudo
- Sapporo Clinical Laboratory Inc., Sapporo, Hokkaido, Japan
| | - A Sumi
- Department of Hygiene, Sapporo Medical University School of Medicine, Japan
| | - N Kobayashi
- Department of Hygiene, Sapporo Medical University School of Medicine, Japan
| |
Collapse
|
21
|
Quiñones D, Carvajal I, Perez Y, Hart M, Perez J, Garcia S, Salazar D, Ghosh S, Kawaguchiya M, Aung MS, Kobayashi N. High prevalence of bla OXA-23 in Acinetobacter spp. and detection of bla NDM-1 in A. soli in Cuba: report from National Surveillance Program (2010-2012). New Microbes New Infect 2015; 7:52-6. [PMID: 26236494 PMCID: PMC4511621 DOI: 10.1016/j.nmni.2015.06.002] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [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: 03/12/2015] [Revised: 05/13/2015] [Accepted: 06/04/2015] [Indexed: 11/29/2022] Open
Abstract
As a first national surveillance of Acinetobacter in Cuba, a total of 500 Acinetobacter spp. isolates recovered from 30 hospitals between 2010 and 2012 were studied. Acinetobacter baumannii–calcoaceticus complex accounted for 96.4% of all the Acinetobacter isolates, while other species were detected at low frequency (A. junii 1.6%, A. lwoffii 1%, A. haemolyticus 0.8%, A. soli 0.2%). Resistance rates of isolates were 34–61% to third-generation cephalosporins, 49–50% to β-lactams/inhibitor combinations, 42–47% to aminoglycosides, 42–44% to carbapenems and 55% to ciprofloxacin. However, resistance rates to colistin, doxycycline, tetracycline and rifampin were less than 5%. Among carbapenem-resistant isolates, 75% harboured different blaOXA genes (OXA-23, 73%; OXA-24, 18%; OXA-58, 3%). The blaNDM-1 gene was identified in an A. soli strain, of which the species was confirmed by sequence analysis of 16S rRNA gene, rpoB, rpoB–rpoC and rpoL–rpoB intergenic spacer regions and gyrB. The sequences of blaNDM-1 and its surrounding genes were identical to those reported for plasmids of A. baumannii and A. lwoffi strains. This is the first report of blaNDM-1 in A. soli, together with a high prevalence of OXA-23 carbapenemase for carbapenem resistance in Acinetobacter spp. in Cuba.
Collapse
Affiliation(s)
- D Quiñones
- Tropical Medicine Institute 'Pedro Kourí', Havana City, Cuba
| | - I Carvajal
- Tropical Medicine Institute 'Pedro Kourí', Havana City, Cuba
| | - Y Perez
- Tropical Medicine Institute 'Pedro Kourí', Havana City, Cuba
| | - M Hart
- 'Hermanos Ameijeiras' Hospital, Havana City, Cuba
| | - J Perez
- Pediátrico 'J. M. Márquez' Hospital, Havana City, Cuba
| | - S Garcia
- 'V. I. Lenin' Hospital, Holguín, Holguín, Cuba
| | - D Salazar
- Tropical Medicine Institute 'Pedro Kourí', Havana City, Cuba
| | - S Ghosh
- Department of Hygiene, Sapporo Medical University School of Medicine, Sapporo, Japan ; Department of Biomedical Science, Ross University School of Medicine, St Kitts, West Indies
| | - M Kawaguchiya
- Department of Hygiene, Sapporo Medical University School of Medicine, Sapporo, Japan
| | - M S Aung
- Department of Hygiene, Sapporo Medical University School of Medicine, Sapporo, Japan
| | - N Kobayashi
- Department of Hygiene, Sapporo Medical University School of Medicine, Sapporo, Japan
| |
Collapse
|
22
|
Masuda H, Aung MS, Nishizawa NK. Iron biofortification of rice using different transgenic approaches. Rice (N Y) 2013; 6:40. [PMID: 24351075 PMCID: PMC3878263 DOI: 10.1186/1939-8433-6-40] [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] [Subscribe] [Scholar Register] [Received: 06/09/2013] [Accepted: 11/07/2013] [Indexed: 05/20/2023]
Abstract
More than 2 billion people suffer from iron (Fe) deficiency, and developing crop cultivars with an increased concentration of micronutrients (biofortification) can address this problem. In this review, we describe seven transgenic approaches, and combinations thereof, that can be used to increase the concentration of Fe in rice seeds. The first approach is to enhance the Fe storage capacity of grains through expression of the Fe storage protein ferritin under the control of endosperm-specific promoters. Using this approach, the concentration of Fe in the seeds of transformants was increased by approximately 2-fold in polished seeds. The second approach is to enhance Fe translocation by overproducing the natural metal chelator nicotianamine; using this approach, the Fe concentration was increased by up to 3-fold in polished seeds. The third approach is to enhance Fe influx to the endosperm by expressing the Fe(II)-nicotianamine transporter gene OsYSL2 under the control of an endosperm-specific promoter and sucrose transporter promoter, which increased the Fe concentration by up to 4-fold in polished seeds. The fourth approach is introduction of the barley mugineic acid synthesis gene IDS3 to enhance Fe uptake and translocation within plants, which resulted in a 1.4-fold increase in the Fe concentration in polished seeds during field cultivation. In addition to the above approaches, Fe-biofortified rice was produced using a combination of the first, second, and third approaches. The Fe concentration in greenhouse-grown T2 polished seeds was 6-fold higher and that in paddy field-grown T3 polished seeds was 4.4-fold higher than in non-transgenic seeds without any reduction in yield. When the first and fourth approaches were combined, the Fe concentration was greater than that achieved by introducing only the ferritin gene, and Fe-deficiency tolerance was observed. With respect to Fe biofortification, the introduction of multiple Fe homeostasis genes is more effective than the introduction of individual genes. Moreover, three additional approaches, i.e., overexpression of the Fe transporter gene OsIRT1 or OsYSL15, overexpression of the Fe deficiency-inducible bHLH transcription factor OsIRO2, and knockdown of the vacuolar Fe transporter gene OsVIT1 or OsVIT2, may be useful to further increase the Fe concentration of seeds.
Collapse
Affiliation(s)
- Hiroshi Masuda
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, 1-308 Suematsu, Nonoichi, Ishikawa 921-8836, Japan
| | - May Sann Aung
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, 1-308 Suematsu, Nonoichi, Ishikawa 921-8836, Japan
| | - Naoko K Nishizawa
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, 1-308 Suematsu, Nonoichi, Ishikawa 921-8836, Japan
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan
| |
Collapse
|
23
|
Aung MS, Masuda H, Kobayashi T, Nakanishi H, Yamakawa T, Nishizawa NK. Iron biofortification of myanmar rice. Front Plant Sci 2013; 4:158. [PMID: 23750162 PMCID: PMC3664312 DOI: 10.3389/fpls.2013.00158] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/22/2013] [Accepted: 05/07/2013] [Indexed: 05/07/2023]
Abstract
Iron (Fe) deficiency elevates human mortality rates, especially in developing countries. In Myanmar, the prevalence of Fe-deficient anemia in children and pregnant women are 75 and 71%, respectively. Myanmar people have one of the highest per capita rice consumption rates globally. Consequently, production of Fe-biofortified rice would likely contribute to solving the Fe-deficiency problem in this human population. To produce Fe-biofortified Myanmar rice by transgenic methods, we first analyzed callus induction and regeneration efficiencies in 15 varieties that are presently popular because of their high-yields or high-qualities. Callus formation and regeneration efficiency in each variety was strongly influenced by types of culture media containing a range of 2,4-dichlorophenoxyacetic acid concentrations. The Paw San Yin variety, which has a high-Fe content in polished seeds, performed well in callus induction and regeneration trials. Thus, we transformed this variety using a gene expression cassette that enhanced Fe transport within rice plants through overexpression of the nicotianamine synthase gene HvNAS1, Fe flow to the endosperm through the Fe(II)-nicotianamine transporter gene OsYSL2, and Fe accumulation in endosperm by the Fe storage protein gene SoyferH2. A line with a transgene insertion was successfully obtained. Enhanced expressions of the introduced genes OsYSL2, HvNAS1, and SoyferH2 occurred in immature T2 seeds. The transformants accumulated 3.4-fold higher Fe concentrations, and also 1.3-fold higher zinc concentrations in T2 polished seeds compared to levels in non-transgenic rice. This Fe-biofortified rice has the potential to reduce Fe-deficiency anemia in millions of Myanmar people without changing food habits and without introducing additional costs.
Collapse
Affiliation(s)
- May Sann Aung
- Laboratory of Plant Biotechnology, Department of Global Agricultural Sciences, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Bunkyo-ku, Tokyo, Japan
- Laboratory of Plant Cell Technology, Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Nonoichi, Ishikawa, Japan
| | - Hiroshi Masuda
- Laboratory of Plant Cell Technology, Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Nonoichi, Ishikawa, Japan
| | - Takanori Kobayashi
- Laboratory of Plant Cell Technology, Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Nonoichi, Ishikawa, Japan
| | - Hiromi Nakanishi
- Laboratory of Plant Biotechnology, Department of Global Agricultural Sciences, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Bunkyo-ku, Tokyo, Japan
| | - Takashi Yamakawa
- Laboratory of Plant Biotechnology, Department of Global Agricultural Sciences, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Bunkyo-ku, Tokyo, Japan
| | - Naoko K. Nishizawa
- Laboratory of Plant Biotechnology, Department of Global Agricultural Sciences, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Bunkyo-ku, Tokyo, Japan
- Laboratory of Plant Cell Technology, Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, Nonoichi, Ishikawa, Japan
- *Correspondence: Naoko K. Nishizawa, Laboratory of Plant Cell Technology, Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, 1-308 Suematsu, Nonoichi, Ishikawa 921-8836, Japan. e-mail:
| |
Collapse
|
24
|
Kobayashi T, Itai RN, Aung MS, Senoura T, Nakanishi H, Nishizawa NK. The rice transcription factor IDEF1 directly binds to iron and other divalent metals for sensing cellular iron status. Plant J 2012; 69:81-91. [PMID: 21880076 DOI: 10.1111/j.1365-313x.2011.04772.x] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
Abstract
Iron is essential for most living organisms and its availability often determines survival and proliferation. The Oryza sativa (rice) transcription factor IDEF1 plays a crucial role in regulating iron deficiency-induced genes involved in iron homeostasis. In the present report, we found characteristic histidine-asparagine repeat and proline-rich regions in IDEF1 and its homolog in Hordeum vulgare (barley), HvIDEF1. An immobilized metal ion affinity chromatography assay revealed that IDEF1 and HvIDEF1 bind to various divalent metals, including Fe(2+) and Ni(2+) . Recombinant IDEF1 protein expressed in Escherichia coli contained mainly Fe and Zn. This metal-binding activity of IDEF1 was almost abolished by deletion of the histidine-asparagine and proline-rich regions, but DNA-binding and trans-activation functions were not impaired by the deletion. Transgenic rice plants constitutively overexpressing IDEF1 without these metal-binding domains failed to cause pleiotropic effects conferred by overexpression of full-length IDEF1, including a low germination rate, impaired seedling growth, tolerance to iron deficiency in hydroponic culture, and enhanced expression of various iron deficiency-inducible genes. Impairment of the transcriptional regulation of IDEF1 by deletion of the metal-binding domains occurred primarily at an early stage of iron deficiency. These results suggest that the histidine-asparagine and proline-rich regions in rice IDEF1 directly bind to divalent metals and sense the cellular metal ion balance caused by changes in iron availability.
Collapse
Affiliation(s)
- Takanori Kobayashi
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan
| | | | | | | | | | | |
Collapse
|
25
|
Ogo Y, Itai RN, Kobayashi T, Aung MS, Nakanishi H, Nishizawa NK. OsIRO2 is responsible for iron utilization in rice and improves growth and yield in calcareous soil. Plant Mol Biol 2011; 75:593-605. [PMID: 21331630 DOI: 10.1007/s11103-011-9752-6] [Citation(s) in RCA: 106] [Impact Index Per Article: 8.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/13/2010] [Accepted: 01/27/2011] [Indexed: 05/04/2023]
Abstract
Iron (Fe) deficiency, a worldwide agricultural problem on calcareous soil with low Fe availability, is also a major human nutritional deficit. Plants induce Fe acquisition systems under conditions of low Fe availability. Previously, we reported that an Fe-deficiency-inducible basic helix-loop-helix (bHLH) transcription factor, OsIRO2, is responsible for regulation of the genes involved in Fe homeostasis in rice. Using promoter-GUS transformants, we showed that OsIRO2 is expressed throughout a plant's lifetime in a spatially and temporally similar manner to the genes OsNAS1, OsNAS2 and TOM1, which is involved in Fe absorption and translocation. During germination, OsIRO2 expression was detected in embryos. OsIRO2 expression in vegetative tissues was restricted almost exclusively to vascular bundles of roots and leaves, and to the root exodermis under Fe-sufficient conditions, and expanded to all tissues of roots and leaves in response to Fe deficiency. OsIRO2 expression was also detected in flowers and developing seeds. Plants overexpressing OsIRO2 grew better, and OsIRO2-repressed plants showed poor growth compared to non-transformant rice after germination. OsIRO2 overexpression also resulted in improved tolerance to low Fe availability in calcareous soil. In addition to increased Fe content in shoots, the overexpression plants accumulated higher amounts of Fe in seeds than non-transformants when grown on calcareous soil. These results suggest that OsIRO2 is synchronously expressed with genes involved in Fe homeostasis, and performs a crucial function in regulation not only of Fe uptake from soil but also Fe transport during germination and Fe translocation to grain during seed maturation.
Collapse
Affiliation(s)
- Yuko Ogo
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, Bunkyo-ku, Tokyo, Japan
| | | | | | | | | | | |
Collapse
|
26
|
Kobayashi T, Ogo Y, Aung MS, Nozoye T, Itai RN, Nakanishi H, Yamakawa T, Nishizawa NK. The spatial expression and regulation of transcription factors IDEF1 and IDEF2. Ann Bot 2010; 105:1109-17. [PMID: 20197292 PMCID: PMC2887061 DOI: 10.1093/aob/mcq002] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.2] [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: 09/30/2009] [Revised: 10/26/2009] [Accepted: 11/26/2009] [Indexed: 05/20/2023]
Abstract
BACKGROUND AND AIMS Under conditions of low iron availability, rice plants induce genes involved in iron uptake and utilization. The iron deficiency-responsive cis-acting element binding factors 1 and 2 (IDEF1 and IDEF2) regulate transcriptional response to iron deficiency in rice roots. Clarification of the functions of IDEF1 and IDEF2 could uncover the gene regulation mechanism. METHODS Spatial patterns of IDEF1 and IDEF2 expression were analysed by histochemical staining of IDEF1 and IDEF2 promoter-GUS transgenic rice lines. Expression patterns of the target genes of IDEF1 and IDEF2 were analysed using transformants with induced or repressed expression of IDEF1 or IDEF2 grown in iron-rich or in iron-deficient solutions for 1 d. KEY RESULTS IDEF1 and IDEF2 were highly expressed in the basal parts of the lateral roots and vascular bundles. IDEF1 and IDEF2 expression was dominant in leaf mesophyll and vascular cells, respectively. These expression patterns were similar under both iron-deficient and iron-sufficient conditions. IDEF1 was strongly expressed in pollen, ovaries, the aleurone layer and embryo. IDEF2 was expressed in pollen, ovaries and the dorsal vascular region of the endosperm. During seed germination, IDEF1 and IDEF2 were expressed in the endosperm and embryo. Expression of IDEF1 target genes was regulated in iron-rich roots similar to early iron-deficiency stages. In addition, the expression patterns of IDEF2 target genes were similar between iron-rich conditions and early or subsequent iron deficiency. CONCLUSIONS IDEF1 and IDEF2 are constitutively expressed during both vegetative and reproductive stages. The spatial expression patterns of IDEF1 and IDEF2 overlap with their target genes in restricted cell types, but not in all cells. The spatial expression patterns and gene regulation of IDEF1 and IDEF2 in roots are generally conserved under conditions of iron sufficiency and deficiency, suggesting complicated interactions with unknown factors for sensing and transmitting iron-deficiency signals.
Collapse
Affiliation(s)
- Takanori Kobayashi
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan
| | - Yuko Ogo
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan
| | - May Sann Aung
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan
| | - Tomoko Nozoye
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan
| | - Reiko Nakanishi Itai
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan
| | - Hiromi Nakanishi
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan
| | - Takashi Yamakawa
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan
| | - Naoko K. Nishizawa
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan
- Research Institute for Bioresources and Biotechnology, Ishikawa Prefectural University, 1-308 Suematsu, Nonoichi-machi, Ishikawa 921-8836, Japan
- For correspondence. E-mail
| |
Collapse
|