Biology For Engineers - Module 5
Biology For Engineers - Module 5
Bioprinting overview:
Bioprinting is a process that involves layer-by-layer deposition of biological materials to
create three-dimensional structures.
It combines biological materials, living cells, and biomaterials to fabricate tissues and
organs with functional properties.
The three basic steps in the 3D bioprinting process include, selection of cells and bioink
materials, mixing of the ingredients and creating the 3D design.
Bioprinting techniques
a. Extrusion – based Bioprinting:
Uses a pneumatic or mechanical extruder to deposit bioinks (cell-laden
biomaterials) onto a substrate.
Suitable for viscous bioinks and large-scale tissue fabrication.
Allows precise control of cell placement and bioink composition.
e. Magnetic Bioprinting:
Relies on magnetically labeled cells or particles that are guided to specific
locations.
Non-contact and potentially higher cell viability.
Bioink Materials:
Bioinks serve as the printable materials containing living cells and biomaterials to create
tissue-like structures.
Common biomaterials include hydrogels, decellularized extracellular matrices (dECMs),
and synthetic polymers.
Natural hydrogels, like collagen, gelatine, and alginate, provide a cell-friendly
environment.
Synthetic polymers, such as polycaprolactone (PCL) and poly (lactic-co-glycolic acid)
(PLGA), offer mechanical support.
dECMs mimic the natural tissue microenvironment and support cell adhesion and
differentiation.
Remember that bioprinting is a rapidly evolving field, and new techniques and materials
continue to emerge as researchers make advancements in the technology. These notes should
provide you with a good starting point for understanding the fundamentals of bioprinting.
b. Bioprinted Ears:
Bioprinting involves printing ear-shaped structures using bioinks containing living cells
and biomaterials.
Natural hydrogels or decellularized extracellular matrices (dECMs) serve as bioink
materials.
The incorporation of patient-derived cells enhances biocompatibility and reduces the risk
of rejection.
Advantages of 3D-Printed Ears:
Customization: Each ear can be designed based on the patient's specific anatomy,
ensuring a better fit and appearance.
Rapid Prototyping: 3D printing allows for quick fabrication of ear prototypes,
streamlining the design and testing process.
Reduced Surgery Time: Customized 3D-printed ears can simplify the surgical procedure,
reducing operation time and patient discomfort.
3D printing of bone:
3D printing of bone, also known as 3D bioprinting of bone, is an emerging field in regenerative
medicine that aims to create bone-like structures using additive manufacturing techniques. These
3D-printed bones constructs hold potential for bone tissue engineering, patient-specific implants,
and bone repair.
Future Directions:
Multimaterial Printing: Advancements in multimaterial 3D printing techniques will
enable the creation of more complex and functional bone constructs.
Bioprinting with Growth Factors: Incorporating growth factors into the bioinks can
further enhance bone regeneration and healing.
Patient-Specific Implants: 3D printing of bone implants tailored to individual patients
may become a standard procedure in the future.
3D printing of bone has the potential to revolutionize the field of bone tissue engineering and
orthopedics. As the technology continues to advance and researchers make further
breakthroughs, we can expect more sophisticated and effective solutions for bone repair and
regeneration.
3D printing of skin:
3D printing of skin, also known as 3D bioprinting of skin, is a cutting-edge technique in the field
of regenerative medicine that aims to create artificial skin constructs. This technology holds
tremendous potential for applications in wound healing, burn treatment, and cosmetic testing,
among others.
b. Dermal Substitutes:
Dermal substitutes, such as collagen-based matrices, can be 3D printed to create the
underlying support structure of the skin.
These dermal constructs can promote cell migration and tissue regeneration.
Advantages of 3D-Printed Skin:
Patient-Specific: 3D printing allows for the customization of skin constructs based on the
patient's specific wound or injury.
Reduced Scarring: The precise layering of cells and biomaterials in 3D-printed skin can
lead to improved cosmetic outcomes.
Faster Wound Healing: Bioprinted skin can facilitate the regeneration of functional skin
tissue, leading to faster wound healing.
Future Directions:
Bioprinting with Multiple Cell Types: Incorporating different cell types in the bioinks
can enhance the functionality of 3D-printed skin.
Bioactive Molecules: Introducing growth factors or cytokines into the bioinks can further
promote tissue regeneration.
Clinical Applications: Continued research and clinical trials are necessary to validate the
safety and efficacy of 3D-printed skin for medical use.
3D printing of skin has shown promising results in preclinical studies, and ongoing research
aims to refine the technology for practical applications in the medical field. As the technology
advances and researchers gain a deeper understanding of skin biology, we can expect 3D-printed
skin to play an increasingly significant role in wound healing and regenerative medicine.
3D printed food
3D printed foods are a fascinating application of 3D printing technology that involves the
fabrication of edible food products layer by layer using specialized 3D printers. This innovative
field holds potential for customized nutrition, sustainable food production, and personalized
culinary experiences.
Future Directions:
Personalized Nutrition: 3D printed foods may become a mainstream solution for
personalized nutrition and addressing specific health needs.
Food Customization: Customized food designs could become a regular offering in
restaurants and homes alike.
Sustainability: 3D printed foods have the potential to reduce food waste and optimize
ingredient usage, contributing to sustainable food production.
It is important to note that 3D printed foods are still in the early stages of development, and there
are regulatory considerations and technical challenges to address. As the technology progresses
and researchers refine the processes, we may witness more widespread adoption of 3D printed
foods in various culinary and nutritional contexts.
Electrical Tongue and electrical Nose in food science
The terms "Electrical tongue" and "Electrical nose" refer to analytical instruments used in food
science to mimic the human senses of taste and smell, respectively. These electronic sensory
systems are employed for food quality evaluation, process optimization, and authenticity
assessment.
Electrical Tongue:
Working Principle:
An electrical tongue comprises an array of sensors, each designed to be sensitive to
specific taste attributes (e.g., sweet, sour, salty, bitter, umami).
When the sample comes into contact with the sensor array, the interaction between the
taste compounds and the sensors generates unique electrical signals.
The signals are then processed and analyzed to create a taste profile of the food or
beverage.
Applications:
Quality Control: Electrical tongues can be used for batch-to-batch consistency testing,
identifying taste defects, and evaluating taste changes during storage.
Product Development: They aid in the formulation of new food products by optimizing
taste profiles based on consumer preferences.
Authentication: E-tongues can distinguish between genuine and counterfeit food products
by comparing their taste profiles.
Electrical Nose:
Working principle:
An electrical nose typically consists of an array of chemical sensors, such as metal-oxide
sensors, organic polymers, quartz crystal and even gas-chromatography (GC) or
combined with mass spectroscopy (MS) can be used.
When volatile compounds interact with these sensors, they induce changes in electrical
conductivity or resistance.
The pattern of responses from the sensor array creates a unique aroma fingerprint for the
sample.
Applications:
Quality Assessment: E-noses can assess the freshness and spoilage of food products
based on their aroma profiles.
Flavor Optimization: They aid in developing new flavors by analyzing the aroma profiles
of different ingredients and blends.
Process Monitoring: E-noses can be used to monitor aroma changes during food
processing and storage.
Limitations:
Complexity: Developing and calibrating sensor arrays can be challenging due to the
complexity of taste and aroma perception.
Specificity: Achieving high selectivity for different taste or aroma compounds remains a
challenge.
Both electrical tongue and electrical nose technologies continue to advance in the field of food
science. As their accuracy and versatility improve, they hold great promise for enhancing food
quality control, product development, and authenticity assessment in the food industry.
Biological materials are self-assembled with near-atomic precision in living cells, whereas synthetic
3D structures generally lack such precision and controllability. Recently, DNA nanotechnology,
especially DNA origami technology, has been useful in the bottom-up fabrication of well-defined
nanostructures ranging from tens of nanometres to sub-micrometres.
DNA Origami:
Definition and Concept:
DNA origami is a nanotechnology technique that involves the folding of DNA strands
into precise and predetermined shapes at the Nano scale level.
The concept is based on using short synthetic DNA strands called "staple strands" to
guide a longer single-stranded DNA (scaffold) into a desired shape.
The current method of DNA origami was developed by Paul Rothemund at the California
Institute of Technology. The process involves the folding of a long single strand of viral
DNA (typically the 7,249 bp genomic DNA of M13 bacteriophage) aided by multiple
smaller "staple" strands.
These shorter strands bind the longer in various places, resulting in the formation of a
pre-defined two- or three-dimensional shape. Examples include a smiley face and a
coarse map of China and the Americas, along with many three-dimensional structures
such as cubes.
Working Principle:
The scaffold strand serves as the foundation, and the staple strands interact with specific
regions on the scaffold to bend and fold it into the desired structure.
By carefully designing the sequence of staple strands, complex two- and three-
dimensional shapes can be achieved.
Applications:
Many potential applications have been suggested in literature, including enzyme
immobilization, drug delivery systems, and nanotechnological self-assembly of
materials.
DNA origami has the immense potential to contribute significantly in a wide range of
fields, such as diagnosis and drug delivery. Cancer therapy and diagnosis is one such
potential domain where DNA origami showed significant anticancer efficacy and may
contribute immensely.
Nanoscale Devices: DNA origami has been used to create various nanoscale structures,
including nanorobots, nanocages, and nanoscale drug delivery systems.
Bioimaging: DNA origami can be functionalized with fluorescent markers to act as
nanoprobes for high-resolution bioimaging.
Templating: It has been utilized as a scaffold for organizing and assembling other
nanoparticles and molecules.
Advantages:
Precision: DNA origami allows for the creation of complex nanostructures with high
precision and controllability.
Biocompatibility: DNA is biocompatible, making DNA origami an attractive option for
biomedical applications.
Challenges:
Scalability: Current DNA origami techniques are limited in their ability to scale up
production and achieve large-scale structures.
Stability: Maintaining the structural integrity of DNA origami in various biological
environments can be challenging.
Biocomputing:
Definition and Concept:
Biocomputing, also known as DNA computing or molecular computing, is a
computational paradigm that uses biological molecules (such as DNA) to perform
computation.
It leverages the information storage capacity and parallelism of biological molecules for
solving complex problems.
Working Principle:
DNA-based computation relies on the ability of DNA molecules to store and process
information through hybridization and enzymatic reactions.
Information is encoded as DNA sequences, and operations are performed by
manipulating these sequences using biochemical reactions.
Applications:
Cryptography: DNA-based encryption and decryption algorithms have been explored for
secure data storage and communication.
Diagnostic Tools: DNA computing has been used to develop biosensors and diagnostic
devices for detecting specific biological targets.
Optimization Problems: DNA computing can be applied to solve optimization problems
in various fields, including biology and engineering.
Advantages:
Massive Parallelism: DNA molecules can process multiple pieces of information
simultaneously, leading to high computational power.
Data Density: DNA can store vast amounts of information in a compact form, making it
attractive for data storage applications.
Challenges:
Error Rates: Biological processes are subject to errors, which can affect the accuracy of
biocomputing operations.
Readout and Output: Translating the results of DNA computations into a readable output
remains a challenge.
Both DNA origami and biocomputing are exciting fields that showcase the potential of DNA as
a versatile material for nanotechnology and computation. Continued research and advancements
in these areas hold promise for numerous practical applications in medicine, nanotechnology,
and information processing.
BIOIMAGING:
Definition and Purpose:
Bioimaging refers to the visualization and creation of images of biological structures and
processes using various imaging techniques. It does not inhibit the various life processes
such as movement, respiration, etc., and it helps to report the 3D structure of specimens
apart from inferencing physically.
It is helpful in connecting the observation of subcellular structures and all the tissues in
the multicellular organisms.
It plays a crucial role in medical diagnosis, research, and treatment planning.
Nanoparticle fluorescence imaging has been used in gene detection, protein analysis,
enzyme activity evaluation, element tracing, cell tracking, early stage disease diagnosis,
tumour related research, and monitoring real time therapeutic effects.
Imaging Modalities:
Various imaging modalities are used in bioimaging, including X-ray, computed
tomography (CT), magnetic resonance imaging (MRI), ultrasound, positron emission
tomography (PET), and single-photon emission computed tomography (SPECT).
Applications:
Medical Diagnosis: Bioimaging is widely used for diagnosing and monitoring various
diseases, including cancer, cardiovascular disorders, neurological conditions, and
musculoskeletal issues.
Research: It enables the study of cellular and molecular processes, organ function, and
disease progression.
Treatment Planning: Bioimaging helps physicians plan surgeries and treatments by
providing detailed information about the patient's anatomy.
Advancements:
Functional Imaging: Besides structural imaging, functional imaging techniques, such as
functional MRI (fMRI) and PET, allow the assessment of physiological processes in real-
time.
Molecular Imaging: Molecular imaging techniques use specific tracers to visualize
cellular processes and molecular interactions.
Challenges:
Image Interpretation: Analyzing complex bioimages can be time-consuming and subject
to variability among different experts.
Image Quality: Obtaining high-quality images while minimizing radiation exposure
remains a challenge.
Applications:
Cancer Diagnosis: AI is used to analyse radiological images, pathology slides, and
genomic data to detect cancerous lesions and tumours.
Neurological Disorders: AI helps in early detection and monitoring of conditions like
Alzheimer's disease and multiple sclerosis.
Cardiac Imaging: AI can analyse cardiac images to detect heart abnormalities and assess
cardiovascular risk.
Advantages:
Enhanced Accuracy: AI algorithms can achieve high accuracy levels in disease
diagnosis, potentially surpassing human performance.
Efficiency: AI can process vast amounts of medical data quickly, leading to faster
diagnosis and treatment planning.
Challenges:
Data Quality: The performance of AI models relies heavily on the quality and diversity
of the training data.
Interpretability: Some AI models, particularly deep learning algorithms, are often
considered "black boxes," making it challenging to understand the decision-making
process.
Conclusion: The integration of bioimaging and artificial intelligence has the potential to
revolutionize disease diagnosis and healthcare by providing accurate and efficient tools for
medical professionals. Continued research and development in these areas will lead to further
advancements and improved patient care.
Self-healing bioconcrete is an innovative construction material that has the ability to repair
cracks and damage on its own without human intervention. It is achieved by incorporating
bacterial spores, calcium lactate nutrients, and biomineralization processes into the concrete
matrix. Here are some key notes on self-healing bioconcrete:
Mechanism of Self-Healing:
The self-healing process in bioconcrete is triggered when cracks form and allow water to
enter the concrete matrix.
Bacterial spores, such as Bacillus species, become activated in the presence of water and
calcium lactate nutrients.
The activated bacteria consume the calcium lactate, producing calcium carbonate through
a biomineralization process.
This calcium carbonate precipitation fills the cracks, sealing them and restoring the
structural integrity of the concrete.
Challenges:
Longevity: The viability and longevity of the bacterial spores in the concrete matrix can
vary depending on environmental conditions and the specific bacteria used.
Crack Size Limitations: Self-healing is most effective for small and hairline cracks;
larger cracks may still require traditional repair methods.
Field Applications:
The concept of self-healing bioconcrete has been tested in various lab settings and pilot
projects.
Real-world applications are gradually being explored in infrastructure projects, including
roads, bridges, and buildings.
Environmental Impact:
Self-healing bioconcrete has the potential to contribute to more sustainable and eco-
friendly construction practices.
The reduction in repair materials and energy consumption aligns with sustainable
development goals.
Future Prospects:
Ongoing research is focusing on enhancing the viability and effectiveness of bacterial
spores in concrete, as well as improving the crack-healing efficiency.
Implementation in larger-scale infrastructure projects is expected to increase as
technology matures and cost-effectiveness is demonstrated.
Self-healing bioconcrete holds promise as a solution to address the issue of concrete cracking
and degradation, improving the durability and resilience of concrete structures. As research and
development continue, the application of self-healing bioconcrete is likely to expand, offering a
sustainable and cost-effective option for the construction industry.
BIOREMEDIATION AND BIO MINING VIA MICROBIAL SURFACE ADSORPTION
Bioremediation:
Definition and Purpose:
Bioremediation is a natural or engineered process that uses microorganisms to degrade,
transform, or remove pollutants from contaminated environments.
It is a sustainable and eco-friendly approach for the cleanup of polluted soils, sediments,
and water bodies.
Microbial Bioremediation:
Microorganisms, such as bacteria and fungi, play a vital role in bioremediation by
metabolizing or immobilizing toxic pollutants.
These microorganisms have the ability to break down or adsorb heavy metals, converting
them into less toxic forms or sequestering them from the environment.
Types of Bioremediation:
Bioremediation is of three types –
1) Biostimulation:
As the name suggests, the bacteria is stimulated to initiate the process. The contaminated soil is
first mixed with special nutrients substances including other vital components either in the form
of liquid or gas. It stimulates the growth of microbes thus resulting in efficient and quick
removal of contaminants by microbes and other bacteria.
2) Bioaugmentation:
At times, there are certain sites where microorganisms are required to extract the contaminants,
e.g. municipal wastewater. In these special cases, the process of bioaugmentation is used, where
bacterial cultures are introduced to enhance the contaminant degradation. There’s only one
major drawback in this process. It almost becomes impossible to control the growth of
microorganisms in the process of removing the contaminant.
3) Intrinsic Bioremediation:
The process of intrinsic bioremediation is most effective in the soil and water because of these
two biomes which always have a high probability of being full of contaminants and toxins. The
process of intrinsic bioremediation is mostly used in underground places like underground
petroleum tanks. In such place, it is difficult to detect a leakage and contaminants and toxins can
find their way to enter through these leaks and contaminate the petrol. Thus, only
microorganisms can remove the toxins and clean the tanks.
Biomass accumulation:
Some microorganisms can accumulate heavy metals within their biomass through a
process called biosorption.
The metal ions bind to the cell surface functional groups, such as carboxyl, amine, and
phosphate groups, in a reversible manner.
Applications:
Heavy Metal Removal: Bioremediation is applied to remove heavy metals like lead,
cadmium, mercury, and arsenic from contaminated sites.
Organic Pollutant Degradation: It is also used to treat organic pollutants, such as
hydrocarbons and pesticides.
Advantages:
Environmentally Friendly: Bioremediation is a natural process that avoids the use of
harsh chemicals.
Cost-Effective: It can be a cost-effective alternative to traditional cleanup methods.
Minimizes Disruption: Bioremediation can often be carried out on-site, reducing the need
for excavation and transportation of contaminated materials.
Bioremediation helps clean up water sources, create healthier soil, and improve air quality
around the globe. But unlike excavation-based remediation processes, which can be disruptive,
bioremediation is less intrusive and can facilitate remediation of environmental impacts without
damaging delicate ecosystems.
Immobilization of microbial cells and enzymes by adsorption takes place through their physical
interaction with the surface of water-insoluble carriers. This method, commonly used in
bioremediation processes, is quick, simple, eco-friendly and cost-effective.
Microorganisms are utilized in bioremediation because of their ability to degrade environmental
pollutants due to their metabolism via biochemical pathways related to the organism’s activity
and growth.
Bioleaching:
Bioleaching involves the use of microorganisms to solubilize metals from ores by
oxidizing metal sulfides and converting them into metal ions.
The metal ions are then leached from the ore, making it easier to recover them.
Microbes from the Acidthiobacillus and Leptospirillum genera are used generally to do
the job.
Biooxidation:
In biooxidation, microorganisms oxidize metal sulfides to release metal ions, making
them accessible for extraction.
This process is particularly useful for the extraction of copper, gold, and uranium from
low-grade ores.
Applications:
Metal Extraction: Biomining is applied to extract valuable metals from mineral ores and
mining waste materials.
Environmental Remediation: It can also be used to recover metals from contaminated
soils and industrial waste streams. The metal ions of wastewater adhere to the surface of
nanoporous adsorbents, which has a high surface area due to its porosity. The adsorption
process could be selective for one or more metals. The regeneration process could be
achieved using a desorbing agent.
Advantages:
Low Environmental Impact: Biomining is considered more environmentally friendly than
traditional mining methods.
Lower Energy Consumption: It often requires less energy compared to conventional
metal extraction techniques.
Both bioremediation and biomining via microbial surface adsorption offer sustainable and
efficient approaches for dealing with heavy metal contamination and metal extraction from ores.
As research and technological advancements continue, these methods are expected to play an
increasingly important role in environmental restoration and mineral resource recovery.