Bioremediation: Challenges and Advancements

Application of “OMICs” Approaches in Bioremediation

Author(s): Monika Sharma, Shagun Sharma, Shibnath Mazumder and Ram Krishan Negi * .

Pp: 191-223 (33)

DOI: 10.2174/9789815036039122010010

* (Excluding Mailing and Handling)

Abstract

Bioremediation is an eco-friendly and highly efficient technology over other
kinds of treatments to remediate contaminated sites. However, it is necessary to take
care of every parameter related to microbial diversity and physiology and the
metabolism of the microbes during bioremediation, which helps in determining the
efficiency and the key factors responsible for accelerating the decontamination process.
For this aspect, various OMICs approaches such as genomics, transcriptomics,
proteomics, and metabolomics play a significant role in generating the information
relevant to the degradation of the contaminants by the microbes. These approaches help
in studying the functional and bio-synthetic potential of a microbe in isolation and play
a crucial role in studying the functional potential of the community as a whole at a
contaminated site. Microbial diversity, an abundance of microbial genera, and their
enzymes are involved in the degradation of various types of pollutants in the
contaminated environment. The present chapter provides an overview of various
studies which are based on the application of OMICs in the field of bioremediation,
advancement in tools and technologies in the methodology associated with OMICS, as
well as about the key microbial players and enzymes used in the degradation of
pollutants.


Keywords: 2D SDS PAGE, Biodegradation, Bioremediation, De novo synthesis, Feature extraction, Fluxomics, Functional potential, Genomics, Herbicide, In silico omics, LC-MS analysis, Mass spectrometry, Metabolomics, Metagenomics, Metaproteomics, Metatranscriptomics, Microbial community, Microbial diversity, OMICs, Protein, Proteomics, RNA-seq, Sequencing technology, Spectral preprocessing, Transcriptomics.

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      • 12. app/Http/Controllers/ChapterController.php:1465
      • 13. vendor/laravel/framework/src/Illuminate/Routing/Controller.php:54
      • 14. vendor/laravel/framework/src/Illuminate/Routing/ControllerDispatcher.php:43
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      • 11. app/Models/ContentAccess.php:647
      • 12. app/Http/Controllers/ChapterController.php:1478
      • 13. vendor/laravel/framework/src/Illuminate/Routing/Controller.php:54
      • 14. vendor/laravel/framework/src/Illuminate/Routing/ControllerDispatcher.php:43
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      • 13. app/Models/UserAccess/UserAccess.php:1266
      • 14. app/Http/Controllers/ChapterController.php:1518
      • 15. vendor/laravel/framework/src/Illuminate/Routing/Controller.php:54
      • 16. vendor/laravel/framework/src/Illuminate/Routing/ControllerDispatcher.php:43
      • 17. vendor/laravel/framework/src/Illuminate/Routing/Route.php:260
    • (select j.user_access_id,j.volume_id,j.user_id,j.from_ip,j.to_ip,j.type,j.track,"Trial Access" as access_base_text, CASE j.type WHEN 111 THEN true ELSE false END as terms_popup, "S" as content_download_type, null as restricted_user_access_key, null as restricted_user_access_type, CASE j.track WHEN 0 THEN false ELSE true END as tracksAccessByVolume,"chapter" as access_level, j.chapter_id from `user_access_chapter_trail` as `j` inner join `user_access_info` as `info` on `j`.`user_access_id` = `info`.`user_access_id` where ((j.from_ip <= 59755419 and j.to_ip >=59755419 )) and ((j.from_date <= 1739847682 and j.to_date >= 1739847682 and j.perpetual= 0) or (j.from_date is null and j.to_date is null and j.perpetual= 1)) and j.chapter_id = 16525) union (select j.user_access_id,j.volume_id,j.user_id,j.from_ip,j.to_ip,j.type,j.track,"Subscribed" as access_base_text, false as terms_popup, "S" as content_download_type, null as restricted_user_access_key, null as restricted_user_access_type, CASE j.track WHEN 0 THEN false ELSE true END as tracksAccessByVolume,"chapter" as access_level, j.chapter_id from `user_access_chapter_corporate` as `j` inner join `user_access_info` as `info` on `j`.`user_access_id` = `info`.`user_access_id` where ((j.from_ip <= 59755419 and j.to_ip >=59755419 )) and ((j.from_date <= 1739847682 and j.to_date >= 1739847682 and j.perpetual= 0) or (j.from_date is null and j.to_date is null and j.perpetual= 1)) and j.chapter_id = 16525) union (select j.user_access_id,j.volume_id,j.user_id,j.from_ip,j.to_ip,j.type,j.track,"Token Based Access" as access_base_text, false as terms_popup, "R" as content_download_type, j.uc_id as restricted_user_access_key, "v" as restricted_user_access_type, CASE j.track WHEN 0 THEN false ELSE true END as tracksAccessByVolume,"chapter" as access_level, j.chapter_id from `user_access_chapter_token` as `j` inner join `user_access_info` as `info` on `j`.`user_access_id` = `info`.`user_access_id` where ((j.from_ip <= 59755419 and j.to_ip >=59755419 )) and ((j.from_date <= 1739847682 and j.to_date >= 1739847682 and j.perpetual= 0) or (j.from_date is null and j.to_date is null and j.perpetual= 1)) and j.chapter_id = 16525)
      800μsalphaeurekaselec_live_10_06_2022UserAccess.php#1266
      Backtrace
      • 13. app/Models/UserAccess/UserAccess.php:1266
      • 14. app/Http/Controllers/ChapterController.php:1549
      • 15. vendor/laravel/framework/src/Illuminate/Routing/Controller.php:54
      • 16. vendor/laravel/framework/src/Illuminate/Routing/ControllerDispatcher.php:43
      • 17. vendor/laravel/framework/src/Illuminate/Routing/Route.php:260
    • select b.banner_link, b.banner_name, b.banner_script, b.banner_remarks, b.banner_file_name, b.banner_placement, bd.content_type, bd.content_id from `tbl_banner` as `b` inner join `tbl_banner_detail` as `bd` on `bd`.`banner_id` = `b`.`banner_id` inner join `users` as `u` on `u`.`id` = `b`.`updated_by` where `b`.`banner_ebook` = 1 and `bd`.`content_type` = 'B' and `bd`.`content_id` = 3310 and `b`.`banner_from_date` <= 1739847682 and `b`.`banner_to_date` >= 1739847682 and `b`.`banner_status` = 'A' order by `b`.`banner_id` desc
      1.05msalphaeurekaselec_live_10_06_2022Banner.php#95
      Bindings
      • 0: 1
      • 1: B
      • 2: 3310
      • 3: 1739847682
      • 4: 1739847682
      • 5: A
      Backtrace
      • 13. app/Models/Banner.php:95
      • 14. app/Http/helpers.php:404
      • 17. vendor/laravel/framework/src/Illuminate/Filesystem/Filesystem.php:124
      • 18. vendor/laravel/framework/src/Illuminate/View/Engines/PhpEngine.php:58
      • 19. vendor/laravel/framework/src/Illuminate/View/Engines/CompilerEngine.php:73
    • select count(*) as aggregate from `uc_cart_products` where cart_id='625900dcbc907895da4da1a268bb6697'
      210μsalphaeurekaselec_live_10_06_2022Cart.php#271
      Backtrace
      • 15. app/Models/Cart.php:271
      • 16. view::layouts._header:260
      • 18. vendor/laravel/framework/src/Illuminate/Filesystem/Filesystem.php:124
      • 19. vendor/laravel/framework/src/Illuminate/View/Engines/PhpEngine.php:58
      • 20. vendor/laravel/framework/src/Illuminate/View/Engines/CompilerEngine.php:73
    App\Models\Keywords
    25Keywords.php#?
    App\Models\Chapter
    1Chapter.php#?
    App\Models\Ebook
    1Ebook.php#?
        _token
        Ubm4aerU9SREcmfVPToC9VYlULryExRclwo6XjBK
        uc_cart_id
        625900dcbc907895da4da1a268bb6697
        _previous
        array:1 [ "url" => "https://alpha.eurekaselect.com/chapter/16525" ]
        _flash
        array:2 [ "old" => [] "new" => [] ]
        PHPDEBUGBAR_STACK_DATA
        []
        path_info
        /chapter/16525
        status_code
        200
        
        status_text
        OK
        format
        html
        content_type
        text/html; charset=UTF-8
        request_query
        []
        
        request_request
        []
        
        request_headers
        0 of 0
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        request_cookies
        0 of 0
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        response_headers
        0 of 0
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        ClearShow all
        Date ↕MethodURLData
        #12025-02-18 03:01:22GET/chapter/165251121927