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Advanced Environmental Microbiology

Code: 42937
Credits: 9
2026/2027
Degree programme Type Course
Applied Microbiology OB 1

Contact lecturer

Name :
Olga Sanchez Martinez
Email :
olga.sanchez@uab.cat

Teaching staff

Eloi Parlade Molist
Antoni Sole Cornella
Elena Hernandez Del Amo
Maira Martinez Alonso

Group languages

You can consult this information at the end of the document.

Prerequisites

Students are advised to carry out a review of basic microbiology concepts as well as aspects related to microbial ecology, environmental microbiology, and the use of molecular techniques in these disciplines.

Objectives

In this module the student will be provided of theoretical and practical knowledge on advanced methodologies for the study of microorganisms in natural and artificial environments. The learning and understanding of these methodologies will allow him/her to acquire the necessary baggage for the use of microorganisms in the resolution of environmental problems.

Learning outcomes

  1. Use acquired knowledge as a basis for originality in the application of ideas, often in a research context.
  2. Solve problems in new or little-known situations within broader (or multidisciplinary) contexts related to the field of study.
  3. Apply appropriate sampling strategies and techniques for microbial communities in natural and artificial ecosystems.
  4. Characterise microorganism populations and communities from environmental samples.
  5. Recognise microorganisms' role as causal agents of decay.
  6. Know the different bioindicators and bioassays based on microorganisms that help to assess environmental impacts.
  7. Know procedures and strategies based on microorganisms for pest and disease control.
  8. Design bioremediation and biorecovery strategies based on microorganisms.
  9. Use and manage bibliographic information and computer resources related to microbiology and related sciences.
  10. Use scientific terminology to account for research results and present these orally and in writing.

Contents

1. Basic concepts of experimental design for the study of microbial communities

2. Analysis of biotope and biocenosis

3. Experimental laboratory models for the study of microbial communities

4. Optical and electron microscopy applied to environmental microbiology

5. Molecular microbial ecology

6. Analysis of the impact of human activity on natural environments

7. Environmental pollution and bioremediation

Learning activities and methodology

Title Hours ECTS Learning outcomes
Tutorials of the practical classes 12 0.48 2, 3, 7, 9, 10
Search and management of information 30 1.2 9, 10
Preparation of case studies 30 1.2 3, 4, 5, 6, 7, 8, 9
Practical classes 21 0.84 2, 6, 9, 10
Study 25 1 2, 3, 5, 6, 7, 10
Preparation of oral presentations 25 1 2, 9, 10
Theoretical lectures 12 0.48 1, 6
Preparation of experimental and computer practices lab exercices 15 0.6 1, 2, 9, 10
Expert seminars 6 0.24 1, 6
Experimental laboratory and computer practices 16 0.64 1, 2, 3, 9, 10
Text reading 30 1.2 1, 6, 7, 9, 10

The teaching methodology includes three types of activities, which have been programmed in an integrated way so that at the end the student acquires the skills indicated in this guide.

Theory block

Expositive theoretical lectures will be given where the basic contents of the module will be explained.

Specialized Seminars

There will also be seminars, given by experts in the different fields of environmental microbiology.

Block of practical classes

It includes:

Experimental laboratory practices: different sessions will be held on high resolution microscopy techniques, both optical and electronic, to determine changes in biodiversity and the uptake of metals by microorganisms in bioreparation processes of contaminated environments.

Classroom practices:There will be several sessions on experimental design for environmental sampling and characterization of microbial diversity in environmental samples, as well as various classes in which different real or hypothetical environmental problems will be solved. An ABP (problem-based learning) methodology will be used, in which students will address the cases raised by working in small groups in the classroom.

Finally, there will be different oral presentations in class to solve the problems posed.

Computer practices: several sessions will be held in the computer room to introduce the student in the treatment and computer analysis of molecular data to study the diversity of microbial communities and the changes they experience in response to different environmental factors or human performances. The following aspects will be addressed:

1. Selection of primers by an in silico study to carry out a study ofmicrobial diversity of a given environment.

2. Statistical analysis of genetic profiles obtained through fingerprinting techniques.

3. Detection of diversity indexes based on the genetic profile of the microbial community.

4. Edition of sequences and determination of their phylogenetic affiliation.

 

In these practical activities the use of Artificial Intelligence (AI) is permitted but in a restricted manner. Therefore, for this subject, the use of AI technologies is allowed exclusively in support tasks, such as bibliographic or information searches, text correction or translations. The student must clearly identify which parts have been generated with this technology, specify the tools used and include a critical reflection on how these have influenced the process and the final result of the activity. The absence of transparency in the use of AI in this assessable activity will be considered a lack of academic honesty and may lead to a partial or total penalty in the grade of the activity, or greater sanctions in serious cases.

 

Annotation: within the schedule set by the centre or degree programme, 15 minutes of one class will be reserved for students to evaluate their lecturers and their courses or modules through questionnaires.

Assessment

Continuous assessment activities

Title Weight Hours ECTS Learning outcomes
Theoretical-practical assessment 40 3 0.12 2, 5, 6, 7, 9, 10
Assessment of computer practices 15 0 0 9, 10
Assessment of practical classes in the classroom 35 0 0 1, 2, 3, 5, 6, 7, 8, 9, 10
Assessment of experimental laboratory practices 10 0 0 4, 10

Continuous evaluation

The specific and transversal skills will be evaluated through different activities:


1. Written test (40%): There will be a written examination of the theoretical-practical contents. This exam will include short questions and / or test questions.


2. Assessment of the block of practical classes (60%). Laboratory and classroom work, as well as the resolution of the exercises raised during practices accomplishment, will be assessed.


Final considerations:


Practical classes are not eligible for the retake process. Students who do not pass the theoretical-practical assessment will be able to retake it on the date scheduled for that purpose. To be eligible for the retake process, the student should have been previously evaluated in a set of activities equaling at least two thirds of the final score of the course. Thus, the student will be graded as "No Avaluable" if the weighthin of all conducted evaluation activities is less than 67% of the final score.

In order to pass the subject it is mandatory to attend all theoretical and practical classes, as well as oral defense sessions of case studies.

Any irregularity in an assessment act (academic fraud, plagiarism or improper use of AI, unless this use is expressly authorized in the teaching guide), which may lead to a significant variation in the grade, means that this act will be graded with a 0. In the event that the teaching guide provides that in order to pass the subject it is an essential requirement to have obtained a minimum grade in this assessment act or that several irregularities occur in the assessment acts of the same subject, the final grade for this subject is 0. Apart from this, a disciplinary process may be initiated against the student who incurs any of these irregularities.


Single evaluation

The single evaluation consists of a single synthesis test in which the theoretical and practical contents of the subject will be evaluated. The test will consist of short-answer questions aimed at assessing whether the conceptual objectives of the subject have been achieved, as well as multiple-choice and/or true/false test-type questions. The grade obtained in this summary test will account for 40% of the final grade for the subject. The single assessment will be done on the same day as the written exam of the subject.

The evaluation of the module of practical classes (classroom and laboratory) will follow the same process as the continuous evaluation. The obtained grade will account for 60% of the final mark of the subject. The practical module attendance is compulsory at all sessions.


Bibliography

It will be the student's responsibility to search and consult the bibliography necessary for the follow-up and completion of the subject.

The teachers will give adequate advice to the students in this regard.

Software

The usual Microsoft environment programs will be used. It is possible to use some more specific free access software that the students will look for according to their needs to solve the exercises in the computer room.

Course groups and languages

The information provided is provisional until November 30. After this date, you will be able to consult the language of each group through this link. To access the information, you will need to enter the course CODE

Type of teaching Group Language Semester Shift
(TEm) Theory (master) 1 Spanish second semester morning-mixed
(PAULm) Classroom practices (master) 1 Catalan/Spanish second semester morning-mixed
(PLABm) Practical laboratories (master) 1 Catalan/Spanish second semester morning-mixed
(SEMm) Seminars (master) 1 Catalan/Spanish second semester morning-mixed
(PLABsm) Suport a les pràctiques de laboratori (màster) 1 Catalan/Spanish second semester morning-mixed