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Como converter o código MySQL em instrução PDO?

Faça uma conexão


Primeiro você precisa substituir seu mysqli conexão com um PDO um (ou pelo menos adicione o PDO conexão ao lado do mysqli 1!). 
// Define database connection parameters
$db_host = "127.0.0.1";
$db_name = "name_of_database";
$db_user = "user_name";
$db_pass = "user_password";


// Create a connection to the MySQL database using PDO
$pdo = new pdo(
    "mysql:host={$db_host};dbname={$db_name}",
    $db_user,
    $db_pass,
    [
        PDO::ATTR_ERRMODE => PDO::ERRMODE_EXCEPTION,
        PDO::ATTR_EMULATE_PREPARES => FALSE
    ]
);

Atualizando seu código

Declarações preparadas com mysqli e PDO


É quase sempre melhor usar instruções preparadas ao colocar dados variáveis ​​em uma consulta SQL. Não só é mais seguro (se os dados vierem de qualquer tipo de entrada gerada pelo usuário), mas também facilita a leitura e a execução várias vezes com valores diferentes.

Consulta preparada com mysqli :
$sql   = "SELECT column1, column2 FROM table WHERE column3 = ? AND column4 = ?";
$query = $mysqli->prepare($sql);
$query->bind_param("si", $string_condition, $int_condition);
$query->execute();
$query->store_result();
$query->bind_result($column1, $column2);
$query->fetch();

echo "Column1: {$column1}<br>";
echo "Column2: {$column2}";

Consulta preparada com PDO :
$sql   = "SELECT column1, column2 FROM table WHERE column3 = ? AND column4 = ?";
$query = $pdo->prepare($sql);
$query->execute([$string_condition, $int_condition]);
$row   = $query->fetchObject();
# $row = $query->fetch(); // Alternative to get indexed and/or associative array

echo "Column1: {$row->column1}<br>";
echo "Column2: {$row->column2}";

Código atualizado

// Using the NULL coalescing operator here is shorter than a ternary
$id = $_SESSION['u_id'] ?? NULL;

if($id) {
    $sql   = "SELECT email FROM users WHERE u_id = ?";
    $query = $pdo->prepare($sql);    // Prepare the query
    $query->execute([$id]);          // Bind the parameter and execute the query
    $email = $query->fetchColumn();  // Return the value from the database
}

// Putting "$email" on a line by itself does nothing for your code. The only
// thing it does is generate a "Notice" if it hasn't been defined earlier in
// the code. Best use:
//    - The ternary operator: $email = (isset($email)) ? $email : "";
//    - The NULL coalescing operator: $email = $email ?? "";
//    - OR initialize it earlier in code, before the first `if`, like: $email = "";
// N.B. Instead of "" you could use NULL or FALSE as well. Basically in this case 
//    anything that equates to BOOL(FALSE); so we can use them in `if` statements
//    so the following (2 commented lines and 1 uncommented) are effectively
//    interchangeable.
$email = $email ?? "";
# $email = $email ?? FALSE; 
# $email = $email ?? NULL;

// Presumably you will also want to change this function to PDO and prepared statements?
// Although it doesn't actually do anything in the code provided?
$suggestions = selectAll($table);  

// Same as with email, we're just going to use the NULL coalescing operator.
// Note: in this case you had used the third option from above - I've just
//   changed it so there is less bloat.
$optionOne     = $_POST['optionOne'] ?? "";
$optionTwo     = $_POST['optionTwo'] ?? "";
$newSuggestion = $_POST['new-suggestion'] ?? "";

// There's no point nesting `if` statements like this when there doesn't appear to be any
// additional code executed based on the out come of each statement? Just put it into one.
// We now don't need to use empty etc. because an empty, false, or null string all.
// equate to FALSE.
if($newSuggestion && $id && $email && $optionOne && $optionTwo) {
    // Not sure why you've made the the table name a variable UNLESS you have multiple tables
    // with exactly the same columns etc. and need to place in different ones at different
    // times. Which seems unlikely so I've just put the table name inline.
    $sql   = "INSERT INTO suggestions (user_id, email, option_1, option_2) VALUES (?, ?, ?, ?)";
    $query = $pdo->prepare($sql);
    $query->execute([$id, $email, $optionOne, $optionTwo]);
}
else{
    echo "All options must be entered";
}

Sem comentários 
$id = $_SESSION['u_id'] ?? NULL;

if($id) {
    $sql   = "SELECT email FROM users WHERE u_id = ?";
    $query = $pdo->prepare($sql);
    $query->execute([$id]);
    $email = $query->fetchColumn();
}
$email       = $email ?? "";
$suggestions = selectAll($table);  

$optionOne     = $_POST['optionOne'] ?? "";
$optionTwo     = $_POST['optionTwo'] ?? "";
$newSuggestion = $_POST['new-suggestion'] ?? "";

if($newSuggestion && $id && $email && $optionOne && $optionTwo) {
    $sql   = "INSERT INTO suggestions (user_id, email, option_1, option_2) VALUES (?, ?, ?, ?)";
    $query = $pdo->prepare($sql);
    $query->execute([$id, $email, $optionOne, $optionTwo]);
}
else{
    echo "All options must be entered";
}