Prokaryotic community structure and predicted metabolism associated with hydrocarbon degradation in marine sediments from the Northwest Coast of Baja California, Mexico

IF 2.8 3区 农林科学 Q3 ENVIRONMENTAL SCIENCES
Ileana Sarahi Ramos-Mendoza, Salvador Embarcadero-Jiménez, Andrea Fernanda Barrios-Navarro, Diana Camila Ledezma-González, Asunción Lago-Lestón, Brianda Jannyn Valenzuela-Suárez, Nancy Ramírez-Álvarez, Hortencia Silva-Jiménez
{"title":"Prokaryotic community structure and predicted metabolism associated with hydrocarbon degradation in marine sediments from the Northwest Coast of Baja California, Mexico","authors":"Ileana Sarahi Ramos-Mendoza, Salvador Embarcadero-Jiménez, Andrea Fernanda Barrios-Navarro, Diana Camila Ledezma-González, Asunción Lago-Lestón, Brianda Jannyn Valenzuela-Suárez, Nancy Ramírez-Álvarez, Hortencia Silva-Jiménez","doi":"10.1007/s11368-024-03822-w","DOIUrl":null,"url":null,"abstract":"<h3 data-test=\"abstract-sub-heading\">Purpose</h3><p>The coastal environment is a fragile ecosystem exposed to anthropogenic pressures, including pollution. Microbial ecology studies have demonstrated the importance of microbial metabolism in marine sediments to maintain nutrient cycling; however, recalcitrant contaminants such as polycyclic aromatic hydrocarbons (PAHs) could affect these microbial communities. This study aimed to investigate the diversity of microbial communities on marine sediments from the North Occidental Coast of Baja California, Mexico (NOCBC) and their potential aromatic hydrocarbon catabolic pathways.</p><h3 data-test=\"abstract-sub-heading\">Materials and methods</h3><p>During the Southern California Bight Oceanographic Campaign, sediment samples were collected in September 2018 from 33 coastal sites from the Tijuana-San Diego border to Punta Banda Cape, Ensenada (Mexico). The samples were analyzed for grain size, total PAHs, and organic carbon (OC) concentrations. Next, the bacterial communities were identified using Illumina high-throughput sequencing of 16S rRNA genes, and hydrocarbonoclastic function was inferred using PICRUSt2.</p><h3 data-test=\"abstract-sub-heading\">Results</h3><p>According to Canadian and EPA guidelines for marine sediments, the total PAH concentration from the samples suggested a low pollution impact. Sequence analysis identified 27 phyla and 36 candidate divisions across the sampled sediments. The dominant phyla were Pseudomonadota, Bacteroidota, Planctomycetota, and Crenarchaeota. At the family level, the most prominent were Piscirickettsiaceae, OM60, Flavobacteriaceae, Pirellulaceae, and Cenarchaeaceae. The key genera were identified as <i>Nitrosopumilus, Lutimonas,</i> and <i>Desulfococcus;</i> nine Amplicon Sequence Variants (ASVs) represented the core microbiome across the sites, comprising about 7.68% of the total reads. The predictive functional analysis detected 47 principal pathways involved in hydrocarbon degradation, including catechol, protocatechuate, and aerobic toluene degradation routes.</p><h3 data-test=\"abstract-sub-heading\">Conclusions</h3><p>Our data suggest the presence of hot spots for aromatic degradative pathways in those sampling sites near cities, where a significant proportion of aromatic hydrocarbon-degrading microorganisms may be present. This study represents the first census of the prokaryotic communities from marine sediments of NOCBC, which harbors diverse communities with hydrocarbonoclastic potential. These results could provide constructive guidelines on ecosystem management and pollution mitigation actions.</p>","PeriodicalId":17139,"journal":{"name":"Journal of Soils and Sediments","volume":null,"pages":null},"PeriodicalIF":2.8000,"publicationDate":"2024-06-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Soils and Sediments","FirstCategoryId":"97","ListUrlMain":"https://doi.org/10.1007/s11368-024-03822-w","RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q3","JCRName":"ENVIRONMENTAL SCIENCES","Score":null,"Total":0}
引用次数: 0

Abstract

Purpose

The coastal environment is a fragile ecosystem exposed to anthropogenic pressures, including pollution. Microbial ecology studies have demonstrated the importance of microbial metabolism in marine sediments to maintain nutrient cycling; however, recalcitrant contaminants such as polycyclic aromatic hydrocarbons (PAHs) could affect these microbial communities. This study aimed to investigate the diversity of microbial communities on marine sediments from the North Occidental Coast of Baja California, Mexico (NOCBC) and their potential aromatic hydrocarbon catabolic pathways.

Materials and methods

During the Southern California Bight Oceanographic Campaign, sediment samples were collected in September 2018 from 33 coastal sites from the Tijuana-San Diego border to Punta Banda Cape, Ensenada (Mexico). The samples were analyzed for grain size, total PAHs, and organic carbon (OC) concentrations. Next, the bacterial communities were identified using Illumina high-throughput sequencing of 16S rRNA genes, and hydrocarbonoclastic function was inferred using PICRUSt2.

Results

According to Canadian and EPA guidelines for marine sediments, the total PAH concentration from the samples suggested a low pollution impact. Sequence analysis identified 27 phyla and 36 candidate divisions across the sampled sediments. The dominant phyla were Pseudomonadota, Bacteroidota, Planctomycetota, and Crenarchaeota. At the family level, the most prominent were Piscirickettsiaceae, OM60, Flavobacteriaceae, Pirellulaceae, and Cenarchaeaceae. The key genera were identified as Nitrosopumilus, Lutimonas, and Desulfococcus; nine Amplicon Sequence Variants (ASVs) represented the core microbiome across the sites, comprising about 7.68% of the total reads. The predictive functional analysis detected 47 principal pathways involved in hydrocarbon degradation, including catechol, protocatechuate, and aerobic toluene degradation routes.

Conclusions

Our data suggest the presence of hot spots for aromatic degradative pathways in those sampling sites near cities, where a significant proportion of aromatic hydrocarbon-degrading microorganisms may be present. This study represents the first census of the prokaryotic communities from marine sediments of NOCBC, which harbors diverse communities with hydrocarbonoclastic potential. These results could provide constructive guidelines on ecosystem management and pollution mitigation actions.

Abstract Image

墨西哥下加利福尼亚西北海岸海洋沉积物中与碳氢化合物降解有关的原核生物群落结构和预测新陈代谢
目的 沿海环境是一个脆弱的生态系统,受到包括污染在内的人为压力的影响。微生物生态学研究表明,海洋沉积物中的微生物新陈代谢对维持营养循环非常重要;然而,多环芳烃(PAHs)等难降解污染物可能会影响这些微生物群落。本研究旨在调查墨西哥下加利福尼亚北西海岸(NOCBC)海洋沉积物上微生物群落的多样性及其潜在的芳香烃分解途径。材料与方法在南加利福尼亚湾海洋学活动期间,于 2018 年 9 月从提华纳-圣地亚哥边境到恩塞纳达(墨西哥)蓬塔班达角的 33 个沿海地点收集了沉积物样本。对样本进行了粒度、多环芳烃总量和有机碳(OC)浓度分析。然后,使用 Illumina 16S rRNA 基因高通量测序鉴定了细菌群落,并使用 PICRUSt2 推断了碳氢化合物的作用。序列分析确定了取样沉积物中的 27 个门和 36 个候选分区。主要的门类为假单胞菌门、类杆菌门、扁孢菌门和子囊菌门。在科一级,最主要的科是鱼腥草科、OM60 科、黄杆菌科、海罂粟科和仙人掌科。关键的属被确定为硝化球菌属(Nitrosopumilus)、泸蒂莫纳菌属(Lutimonas)和脱硫球菌属(Desulfococcus);9 个扩增子序列变体(ASV)代表了各个地点的核心微生物组,约占总读数的 7.68%。预测性功能分析发现了 47 种参与碳氢化合物降解的主要途径,包括邻苯二酚、原儿茶酸盐和需氧甲苯降解途径。结论我们的数据表明,在城市附近的采样点存在芳香烃降解途径的热点,在这些采样点可能存在很大比例的芳香烃降解微生物。这项研究是对 NOCBC 海洋沉积物中的原核生物群落进行的首次普查,NOCBC 海洋沉积物中蕴藏着多种具有碳氢化合物降解潜力的群落。这些结果可为生态系统管理和污染缓解行动提供建设性指导。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
求助全文
约1分钟内获得全文 求助全文
来源期刊
Journal of Soils and Sediments
Journal of Soils and Sediments 环境科学-土壤科学
CiteScore
7.00
自引率
5.60%
发文量
256
审稿时长
3.5 months
期刊介绍: The Journal of Soils and Sediments (JSS) is devoted to soils and sediments; it deals with contaminated, intact and disturbed soils and sediments. JSS explores both the common aspects and the differences between these two environmental compartments. Inter-linkages at the catchment scale and with the Earth’s system (inter-compartment) are an important topic in JSS. The range of research coverage includes the effects of disturbances and contamination; research, strategies and technologies for prediction, prevention, and protection; identification and characterization; treatment, remediation and reuse; risk assessment and management; creation and implementation of quality standards; international regulation and legislation.
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
请完成安全验证×
copy
已复制链接
快去分享给好友吧!
我知道了
右上角分享
点击右上角分享
0
联系我们:info@booksci.cn Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术官方微信