3
|
Demenkov PS, Oshchepkova ЕА, Demenkov PS, Ivanisenko TV, Ivanisenko VA. Prioritization of biological processes based on the reconstruction and analysis of associative gene networks describing the response of plants to adverse environmental factors. Vavilovskii Zhurnal Genet Selektsii 2021; 25:580-592. [PMID: 34723066 PMCID: PMC8543060 DOI: 10.18699/vj21.065] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2020] [Revised: 06/21/2021] [Accepted: 06/21/2021] [Indexed: 11/23/2022] Open
Abstract
Methods for prioritizing or ranking candidate genes according to their importance based on specif ic criteria
via the analysis of gene networks are widely used in biomedicine to search for genes associated with diseases and to
predict biomarkers, pharmacological targets and other clinically relevant molecules. These methods have also been
used in other f ields, particularly in crop production. This is largely due to the development of technologies to solve
problems in marker-oriented and genomic selection, which requires knowledge of the molecular genetic mechanisms
underlying the formation of agriculturally valuable traits. A new direction for the study of molecular genetic mechanisms
is the prioritization of biological processes based on the analysis of associative gene networks. Associative gene
networks are heterogeneous networks whose vertices can depict both molecular genetic objects (genes, proteins, metabolites,
etc.) and the higher-level factors (biological processes, diseases, external environmental factors, etc.) related
to regulatory, physicochemical or associative interactions. Using a previously developed method, biological processes
involved in plant responses to increased cadmium content, saline stress and drought conditions were prioritized according
to their degree of connection with the gene networks in the SOLANUM TUBEROSUM knowledge base. The
prioritization results indicate that fundamental processes, such as gene expression, post-translational modif ications,
protein degradation, programmed cell death, photosynthesis, signal transmission and stress response play important
roles in the common molecular genetic mechanisms for plant response to various adverse factors. On the other hand, a
group of processes related to the development of seeds (“seeding development”) was revealed to be drought specif ic,
while processes associated with ion transport (“ion transport”) were included in the list of responses specif ic to salt
stress and processes associated with the metabolism of lipids were found to be involved specif ically in the response to
cadmium.
Collapse
Affiliation(s)
- P S Demenkov
- Institute of Cytology and Genetics of the Siberian Branch of the Russian Academy of Sciences, Novosibirsk, Russia Novosibirsk State University, Novosibirsk, Russia
| | - Е А Oshchepkova
- Institute of Cytology and Genetics of the Siberian Branch of the Russian Academy of Sciences, Novosibirsk, Russia
| | - P S Demenkov
- Institute of Cytology and Genetics of the Siberian Branch of the Russian Academy of Sciences, Novosibirsk, Russia Novosibirsk State University, Novosibirsk, Russia
| | - T V Ivanisenko
- Institute of Cytology and Genetics of the Siberian Branch of the Russian Academy of Sciences, Novosibirsk, Russia
| | - V A Ivanisenko
- Novosibirsk State University, Novosibirsk, Russiavosibirsk, Russia Kurchatov Genomic Center of ICG SB RAS, Novosibirsk, Russia
| |
Collapse
|
4
|
Yang GL, Zheng MM, Tan AJ, Liu YT, Feng D, Lv SM. Research on the Mechanisms of Plant Enrichment and Detoxification of Cadmium. BIOLOGY 2021; 10:biology10060544. [PMID: 34204395 PMCID: PMC8234526 DOI: 10.3390/biology10060544] [Citation(s) in RCA: 31] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/13/2021] [Revised: 06/09/2021] [Accepted: 06/11/2021] [Indexed: 11/16/2022]
Abstract
The heavy metal cadmium (Cd), as one of the major environmentally toxic pollutants, has serious impacts on the growth, development, and physiological functions of plants and animals, leading to deterioration of environmental quality and threats to human health. Research on how plants absorb and transport Cd, as well as its enrichment and detoxification mechanisms, is of great significance to the development of phytoremediation technologies for ecological and environmental management. This article summarises the research progress on the enrichment of heavy metal cadmium in plants in recent years, including the uptake, transport, and accumulation of Cd in plants. The role of plant roots, compartmentalisation, chelation, antioxidation, stress, and osmotic adjustment in the process of plant Cd enrichment are discussed. Finally, problems are proposed to provide a more comprehensive theoretical basis for the further application of phytoremediation technology in the field of heavy metal pollution.
Collapse
Affiliation(s)
- Gui-Li Yang
- College of Life Sciences, Guizhou University, Guiyang 550025, China; (G.-L.Y.); (M.-M.Z.); (A.-J.T.); (Y.-T.L.); (D.F.)
- State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang 550081, China
| | - Meng-Meng Zheng
- College of Life Sciences, Guizhou University, Guiyang 550025, China; (G.-L.Y.); (M.-M.Z.); (A.-J.T.); (Y.-T.L.); (D.F.)
| | - Ai-Juan Tan
- College of Life Sciences, Guizhou University, Guiyang 550025, China; (G.-L.Y.); (M.-M.Z.); (A.-J.T.); (Y.-T.L.); (D.F.)
| | - Yu-Ting Liu
- College of Life Sciences, Guizhou University, Guiyang 550025, China; (G.-L.Y.); (M.-M.Z.); (A.-J.T.); (Y.-T.L.); (D.F.)
| | - Dan Feng
- College of Life Sciences, Guizhou University, Guiyang 550025, China; (G.-L.Y.); (M.-M.Z.); (A.-J.T.); (Y.-T.L.); (D.F.)
| | - Shi-Ming Lv
- College of Animal Science, Guizhou University, Guiyang 550025, China
- Correspondence: ; Tel.: +86-1376-513-6919
| |
Collapse
|
5
|
Galal TM, Gharib FA, Ghazi SM, Mansour KH. Metal uptake capability of Cyperus articulatus L. and its role in mitigating heavy metals from contaminated wetlands. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2017; 24:21636-21648. [PMID: 28752307 DOI: 10.1007/s11356-017-9793-8] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/11/2017] [Accepted: 07/19/2017] [Indexed: 06/07/2023]
Abstract
Wetland plants are biological filters that play an important role in maintaining aquatic ecosystem and can take up toxic metals from sediments and water. The present study investigated the seasonal variation in the accumulation potential of heavy metals by Cyperus articulatus in contaminated watercourses. Forty quadrats, distributed equally in 8 sites (six contaminated sites along Ismailia canal and two uncontaminated sites along the River Nile), were selected seasonally for sediment, water, and plant investigations. Autumn was the flourishing season of C. articulatus with the highest shoot density, length, and diameter as well as aboveground biomass, while summer showed the least growth performance. The photosynthetic pigments were markedly reduced under contamination stress. C. articulatus plants accumulated concentrations of most heavy metals, except Pb, in their roots higher than the shoots. The plant tissues accumulated the highest concentrations of Fe, Cd, Ni, and Zn during autumn, while Cu and Mn during spring, and Cr and Co during winter. It was found that Cd, Cu, Ni, Zn, Pb, and Co had seasonal bioaccumulation factor (BF) > 1 with the highest BF for Cd, Ni, and Zn during autumn, Co, Cu, and Pb in winter, spring, and summer, respectively. The translocation factor of most heavy metals, except Pb in spring, was <1 indicating potential phytostabilization of these metals. In conclusion, autumn is an ideal season for harvesting C. articulatus in order to monitor pollution in contaminated wetlands.
Collapse
Affiliation(s)
- Tarek M Galal
- Botany and Microbiology Department, Faculty of Science, Helwan University, Cairo, Egypt.
| | - Fatma A Gharib
- Botany and Microbiology Department, Faculty of Science, Helwan University, Cairo, Egypt
| | - Safia M Ghazi
- Botany and Microbiology Department, Faculty of Science, Helwan University, Cairo, Egypt
| | - Khalid H Mansour
- Botany and Microbiology Department, Faculty of Science, Helwan University, Cairo, Egypt
| |
Collapse
|
6
|
Tian S, Xie R, Wang H, Hu Y, Hou D, Liao X, Brown PH, Yang H, Lin X, Labavitch JM, Lu L. Uptake, sequestration and tolerance of cadmium at cellular levels in the hyperaccumulator plant species Sedum alfredii. JOURNAL OF EXPERIMENTAL BOTANY 2017; 68:2387-2398. [PMID: 28407073 PMCID: PMC5853795 DOI: 10.1093/jxb/erx112] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/03/2016] [Accepted: 03/14/2017] [Indexed: 05/08/2023]
Abstract
Sedum alfredii is one of a few plant species known to hyperaccumulate cadmium (Cd). Uptake, localization, and tolerance of Cd at cellular levels in shoots were compared in hyperaccumulating (HE) and non-hyperaccumulating (NHE) ecotypes of Sedum alfredii. X-ray fluorescence images of Cd in stems and leaves showed only a slight Cd signal restricted within vascular bundles in the NHEs, while enhanced localization of Cd, with significant tissue- and age-dependent variations, was detected in HEs. In contrast to the vascular-enriched Cd in young stems, parenchyma cells in leaf mesophyll, stem pith and cortex tissues served as terminal storage sites for Cd sequestration in HEs. Kinetics of Cd transport into individual leaf protoplasts of the two ecotypes showed little difference in Cd accumulation. However, far more efficient storage of Cd in vacuoles was apparent in HEs. Subsequent analysis of cell viability and hydrogen peroxide levels suggested that HE protoplasts exhibited higher resistance to Cd than those of NHE protoplasts. These results suggest that efficient sequestration into vacuoles, as opposed to rapid transport into parenchyma cells, is a pivotal process in Cd accumulation and homeostasis in shoots of HE S. alfredii. This is in addition to its efficient root-to-shoot translocation of Cd.
Collapse
Affiliation(s)
- Shengke Tian
- MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental & Resource Science, Zhejiang University, Hangzhou, China
| | - Ruohan Xie
- MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental & Resource Science, Zhejiang University, Hangzhou, China
| | - Haixin Wang
- MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental & Resource Science, Zhejiang University, Hangzhou, China
| | - Yan Hu
- MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental & Resource Science, Zhejiang University, Hangzhou, China
| | - Dandi Hou
- MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental & Resource Science, Zhejiang University, Hangzhou, China
| | - Xingcheng Liao
- MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental & Resource Science, Zhejiang University, Hangzhou, China
| | - Patrick H Brown
- Department of Plant Sciences, University of California, Davis, CA, USA
| | - Hongxia Yang
- National Research Center for Geoanalysis, Beijing, China
| | - Xianyong Lin
- MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental & Resource Science, Zhejiang University, Hangzhou, China
| | - John M Labavitch
- Department of Plant Sciences, University of California, Davis, CA, USA
| | - Lingli Lu
- MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental & Resource Science, Zhejiang University, Hangzhou, China
| |
Collapse
|
7
|
Tian S, Xie R, Wang H, Hu Y, Ge J, Liao X, Gao X, Brown P, Lin X, Lu L. Calcium Deficiency Triggers Phloem Remobilization of Cadmium in a Hyperaccumulating Species. PLANT PHYSIOLOGY 2016; 172:2300-2313. [PMID: 27789737 PMCID: PMC5129722 DOI: 10.1104/pp.16.01348] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/30/2016] [Accepted: 10/24/2016] [Indexed: 05/19/2023]
Abstract
Understanding cadmium (Cd) accumulation in plants is critical for the development of plant-based strategies for soil remediation and crop safety. Sedum alfredii is a nonbrassica plant species known to hyperaccumulate Cd. The characteristics of Cd uptake, distribution, and retranslocation affected by the Ca status were investigated at cellular levels in S. alfredii Low Ca supply significantly increased Cd contents in shoots of S. alfredii, particularly in the young leaves. Micro x-ray fluorescence images confirmed that sequestration of Cd was greatly enhanced in the young leaves under Ca deficiency stress, with a significant amount of Cd localized in mesophyll cells, compared to the young leaves supplied with high Ca levels. Cd influx into protoplasts isolated from young leaves was significantly inhibited by the addition of Ca channel inhibitors, but not by pre-exposure to Ca deficiency. In stems, the Cd signal in vascular systems under low Ca levels was 10-fold higher than in those treated with higher Ca levels. A detailed investigation of vascular bundles revealed that an extremely high Cd signal induced by low Ca supply occurred in the phloem tissues, but not in the xylem tissues. Transfer of Cd pretreated plants to nutrient solutions at different Ca levels confirmed that a much higher amount of Cd was reallocated to the new growth tissues under low Ca stress compared to plants supplied with sufficient Ca. These results suggest that Ca deficiency triggered a highly efficient phloem remobilization of Cd in S. alfredii and subsequently enhanced Cd accumulation in its young leaves.
Collapse
Affiliation(s)
- Shengke Tian
- Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Science, Zhejiang University, Ministry of Education, Hangzhou 310058, China (S.T., R.X., H.W., Y.H., J.G, X.C.L., X.G., L.L.)
- Zhejiang Provincial Key Laboratory of Subtropic Soil and Plant Nutrition, Zhejiang University, Hangzhou 310058, China (H.W., Y.H., X.G., X.Y.L., L.L.); and
- Department of Plant Sciences, University of California, Davis, California 95616 (P.B.)
| | - Ruohan Xie
- Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Science, Zhejiang University, Ministry of Education, Hangzhou 310058, China (S.T., R.X., H.W., Y.H., J.G, X.C.L., X.G., L.L.)
- Zhejiang Provincial Key Laboratory of Subtropic Soil and Plant Nutrition, Zhejiang University, Hangzhou 310058, China (H.W., Y.H., X.G., X.Y.L., L.L.); and
- Department of Plant Sciences, University of California, Davis, California 95616 (P.B.)
| | - Haixin Wang
- Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Science, Zhejiang University, Ministry of Education, Hangzhou 310058, China (S.T., R.X., H.W., Y.H., J.G, X.C.L., X.G., L.L.)
- Zhejiang Provincial Key Laboratory of Subtropic Soil and Plant Nutrition, Zhejiang University, Hangzhou 310058, China (H.W., Y.H., X.G., X.Y.L., L.L.); and
- Department of Plant Sciences, University of California, Davis, California 95616 (P.B.)
| | - Yan Hu
- Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Science, Zhejiang University, Ministry of Education, Hangzhou 310058, China (S.T., R.X., H.W., Y.H., J.G, X.C.L., X.G., L.L.)
- Zhejiang Provincial Key Laboratory of Subtropic Soil and Plant Nutrition, Zhejiang University, Hangzhou 310058, China (H.W., Y.H., X.G., X.Y.L., L.L.); and
- Department of Plant Sciences, University of California, Davis, California 95616 (P.B.)
| | - Jun Ge
- Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Science, Zhejiang University, Ministry of Education, Hangzhou 310058, China (S.T., R.X., H.W., Y.H., J.G, X.C.L., X.G., L.L.)
- Zhejiang Provincial Key Laboratory of Subtropic Soil and Plant Nutrition, Zhejiang University, Hangzhou 310058, China (H.W., Y.H., X.G., X.Y.L., L.L.); and
- Department of Plant Sciences, University of California, Davis, California 95616 (P.B.)
| | - Xingcheng Liao
- Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Science, Zhejiang University, Ministry of Education, Hangzhou 310058, China (S.T., R.X., H.W., Y.H., J.G, X.C.L., X.G., L.L.)
- Zhejiang Provincial Key Laboratory of Subtropic Soil and Plant Nutrition, Zhejiang University, Hangzhou 310058, China (H.W., Y.H., X.G., X.Y.L., L.L.); and
- Department of Plant Sciences, University of California, Davis, California 95616 (P.B.)
| | - Xiaoyu Gao
- Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Science, Zhejiang University, Ministry of Education, Hangzhou 310058, China (S.T., R.X., H.W., Y.H., J.G, X.C.L., X.G., L.L.)
- Zhejiang Provincial Key Laboratory of Subtropic Soil and Plant Nutrition, Zhejiang University, Hangzhou 310058, China (H.W., Y.H., X.G., X.Y.L., L.L.); and
- Department of Plant Sciences, University of California, Davis, California 95616 (P.B.)
| | - Patrick Brown
- Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Science, Zhejiang University, Ministry of Education, Hangzhou 310058, China (S.T., R.X., H.W., Y.H., J.G, X.C.L., X.G., L.L.)
- Zhejiang Provincial Key Laboratory of Subtropic Soil and Plant Nutrition, Zhejiang University, Hangzhou 310058, China (H.W., Y.H., X.G., X.Y.L., L.L.); and
- Department of Plant Sciences, University of California, Davis, California 95616 (P.B.)
| | - Xianyong Lin
- Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Science, Zhejiang University, Ministry of Education, Hangzhou 310058, China (S.T., R.X., H.W., Y.H., J.G, X.C.L., X.G., L.L.)
- Zhejiang Provincial Key Laboratory of Subtropic Soil and Plant Nutrition, Zhejiang University, Hangzhou 310058, China (H.W., Y.H., X.G., X.Y.L., L.L.); and
- Department of Plant Sciences, University of California, Davis, California 95616 (P.B.)
| | - Lingli Lu
- Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Science, Zhejiang University, Ministry of Education, Hangzhou 310058, China (S.T., R.X., H.W., Y.H., J.G, X.C.L., X.G., L.L.);
- Zhejiang Provincial Key Laboratory of Subtropic Soil and Plant Nutrition, Zhejiang University, Hangzhou 310058, China (H.W., Y.H., X.G., X.Y.L., L.L.); and
- Department of Plant Sciences, University of California, Davis, California 95616 (P.B.)
| |
Collapse
|